create_basic_knowledgegraph
[1]:
%load_ext autoreload
import os, sys
import networkx as nx
sys.path.insert(0, "../")
sys.path.insert(0, "/home/j/joppich/.local/lib/python3.11/site-packages/")
%autoreload 2
from PICASO.kgraph import *
import pandas as pd
import numpy as np
import matplotlib
import matplotlib.pyplot as plt
from collections import defaultdict, Counter
import random
random.seed(42)
import pickle
[2]:
kg = KGraph()
[3]:
kg.load_kgraph_base("../data/", TFs=True, go=True, omnipath=True, opentargets=True, reactome=True, STRING=True, kegg=True, uniprot_loc=True, NPINTER=False)
/mnt/raidbio/extproj/projekte/regulatory_networks/scripts/../mikg/load_utils.py:492: SettingWithCopyWarning:
A value is trying to be set on a copy of a slice from a DataFrame.
Try using .loc[row_indexer,col_indexer] = value instead
See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
subdf["score"] = subdf[use_evidences].max(axis=1)/1000
HMS:0:00:10.660940 626,136 annotations READ: ../data/goa_human.gaf
../data/go-basic.obo: fmt(1.2) rel(2023-01-01) 46,739 Terms
/mnt/raidbio/extproj/projekte/regulatory_networks/scripts/../mikg/load_utils.py:357: DtypeWarning: Columns (18) have mixed types. Specify dtype option on import or set low_memory=False.
opd = pd.read_csv(omnipathDB, sep="\t")
../data/uniprot_cellular_location.obo: fmt(1.2) rel(None) 563 Terms; optional_attrs(relationship xref)
Removing 14483 singletons
[4]:
for x in kg.kg.nodes:
if len(kg.kg.nodes[x].get("type", [])) == 0:
print(x, kg.kg.nodes[x])
[5]:
kg.get_edge_between_type()
[5]:
Counter({('gene', 'geneset'): 841157,
('gene', 'gene'): 344408,
('TF;gene', 'gene'): 95771,
('geneset', 'geneset'): 74634,
('TF;gene', 'geneset'): 74544,
('gene', 'disease'): 43297,
('gene', 'geneset;subcellular_location'): 40554,
('disease', 'drug'): 35017,
('gene', 'TF;gene'): 19994,
('TF;gene', 'TF;gene'): 16120,
('gene', 'drug'): 7899,
('miRNA;ncRNA', 'gene'): 7848,
('TF;gene', 'disease'): 5105,
('TF;gene', 'miRNA;ncRNA'): 2099,
('TF;gene', 'geneset;subcellular_location'): 2043,
('miRNA;ncRNA', 'TF;gene'): 1808,
('gene', 'disease;geneset'): 1714,
('geneset;subcellular_location', 'geneset;subcellular_location'): 721,
('gene', 'miRNA;ncRNA'): 651,
('geneset;subcellular_location', 'geneset'): 460,
('gene;lncRNA;ncRNA', 'geneset'): 444,
('TF;gene', 'drug'): 341,
('geneset', 'disease;geneset'): 200,
('TF;gene', 'disease;geneset'): 147,
('gene;lncRNA;ncRNA', 'gene'): 120,
('disease;geneset', 'geneset'): 95,
('lncRNA;ncRNA', 'gene'): 49,
('gene', 'gene;lncRNA;ncRNA'): 36,
('disease;geneset', 'drug'): 34,
('gene;lncRNA;ncRNA', 'TF;gene'): 33,
('TF;gene', 'gene;lncRNA;ncRNA'): 20,
('lncRNA;ncRNA', 'TF;gene'): 12,
('gene;lncRNA;ncRNA', 'geneset;subcellular_location'): 6,
('disease;geneset', 'disease;geneset'): 5,
('lncRNA;ncRNA', 'lncRNA;ncRNA'): 2,
('gene;lncRNA;ncRNA', 'disease'): 1})
[6]:
kg.get_node_types()
[6]:
Counter({'geneset': 55163,
'gene': 41990,
'disease': 7781,
'drug': 3195,
'TF;gene': 1630,
'miRNA;ncRNA': 593,
'geneset;subcellular_location': 557,
'disease;geneset': 61,
'lncRNA;ncRNA': 36,
'gene;lncRNA;ncRNA': 26})
[7]:
kg.get_edge_types()
[7]:
Counter({'part_of': 748950,
'interacts': 434239,
'relevant_in': 205461,
'activates': 158390,
'affected_by': 35051,
'represses': 27058,
'target_of': 8240})
[8]:
kg.get_edge_types(field="source")
[8]:
Counter({'kegg': 501176,
'GeneOntology': 361812,
'STRING': 293213,
'omnipath': 195758,
'reactome': 129820,
'opentargets': 91826,
'uniprot_celloc': 43784})
[51]:
kg.plot_edge_types(field="type")
[52]:
kg.plot_edge_types(field="source")
[9]:
kg.get_edge_edge_types()
[9]:
Counter({('gene', 'geneset', 'part_of'): 584177,
('gene', 'gene', 'interacts'): 299011,
('gene', 'geneset', 'relevant_in'): 184343,
('geneset', 'geneset', 'part_of'): 74634,
('gene', 'geneset', 'activates'): 72637,
('TF;gene', 'gene', 'interacts'): 61341,
('TF;gene', 'geneset', 'part_of'): 46417,
('gene', 'disease', 'interacts'): 43297,
('gene', 'geneset;subcellular_location', 'part_of'): 40554,
('gene', 'gene', 'activates'): 35829,
('disease', 'drug', 'affected_by'): 35017,
('TF;gene', 'gene', 'activates'): 30050,
('TF;gene', 'geneset', 'relevant_in'): 18589,
('gene', 'TF;gene', 'interacts'): 14452,
('TF;gene', 'TF;gene', 'interacts'): 9704,
('gene', 'gene', 'represses'): 9568,
('TF;gene', 'geneset', 'activates'): 9538,
('gene', 'drug', 'target_of'): 7899,
('miRNA;ncRNA', 'gene', 'represses'): 7848,
('TF;gene', 'disease', 'interacts'): 5105,
('TF;gene', 'TF;gene', 'activates'): 5097,
('TF;gene', 'gene', 'represses'): 4380,
('gene', 'TF;gene', 'activates'): 4085,
('TF;gene', 'geneset;subcellular_location', 'part_of'): 2043,
('miRNA;ncRNA', 'TF;gene', 'represses'): 1808,
('gene', 'disease;geneset', 'relevant_in'): 1587,
('gene', 'TF;gene', 'represses'): 1457,
('TF;gene', 'TF;gene', 'represses'): 1319,
('TF;gene', 'miRNA;ncRNA', 'activates'): 936,
('TF;gene', 'miRNA;ncRNA', 'interacts'): 661,
('TF;gene', 'miRNA;ncRNA', 'represses'): 502,
('geneset;subcellular_location', 'geneset', 'relevant_in'): 460,
('geneset;subcellular_location',
'geneset;subcellular_location',
'part_of'): 417,
('gene;lncRNA;ncRNA', 'geneset', 'part_of'): 402,
('TF;gene', 'drug', 'target_of'): 341,
('geneset;subcellular_location',
'geneset;subcellular_location',
'relevant_in'): 304,
('gene', 'miRNA;ncRNA', 'interacts'): 297,
('geneset', 'disease;geneset', 'part_of'): 200,
('gene', 'miRNA;ncRNA', 'activates'): 179,
('gene', 'miRNA;ncRNA', 'represses'): 175,
('TF;gene', 'disease;geneset', 'relevant_in'): 142,
('gene', 'disease;geneset', 'interacts'): 127,
('gene;lncRNA;ncRNA', 'gene', 'interacts'): 110,
('disease;geneset', 'geneset', 'part_of'): 95,
('lncRNA;ncRNA', 'gene', 'interacts'): 49,
('gene;lncRNA;ncRNA', 'geneset', 'relevant_in'): 36,
('disease;geneset', 'drug', 'affected_by'): 34,
('gene;lncRNA;ncRNA', 'TF;gene', 'interacts'): 30,
('gene', 'gene;lncRNA;ncRNA', 'interacts'): 26,
('lncRNA;ncRNA', 'TF;gene', 'interacts'): 12,
('gene', 'gene;lncRNA;ncRNA', 'activates'): 10,
('TF;gene', 'gene;lncRNA;ncRNA', 'activates'): 10,
('gene;lncRNA;ncRNA', 'gene', 'activates'): 10,
('TF;gene', 'gene;lncRNA;ncRNA', 'interacts'): 9,
('gene;lncRNA;ncRNA', 'geneset', 'activates'): 6,
('gene;lncRNA;ncRNA', 'geneset;subcellular_location', 'part_of'): 6,
('disease;geneset', 'disease;geneset', 'part_of'): 5,
('TF;gene', 'disease;geneset', 'interacts'): 5,
('gene;lncRNA;ncRNA', 'TF;gene', 'activates'): 3,
('lncRNA;ncRNA', 'lncRNA;ncRNA', 'interacts'): 2,
('TF;gene', 'gene;lncRNA;ncRNA', 'represses'): 1,
('gene;lncRNA;ncRNA', 'disease', 'interacts'): 1})
[10]:
kg.plot_node_types()
[48]:
kg.plot_node_types(show_threshold=0.001)
[11]:
kg.plot_edge_between_types()
[12]:
print(kg.kg)
DiGraph with 111032 nodes and 1617389 edges
[13]:
for x in kg.kg.nodes:
if "gene" in kg.kg.nodes[x]["type"] and "miRNA" in kg.kg.nodes[x]["type"]:
print(x, kg.kg.nodes[x])
[14]:
kg.save_kgraph("../data/initial_base_graph.out")
[72]:
okg = KGraph()
okg.load_kgraph("../data/initial_base_graph.out")
[73]:
okg.plot_child_distribution(plot=False)
plt.title("Cumulative Histogram of Node in-Degrees")
plt.xlim(0, 2000)
plt.show()
[81]:
okg.plot_node_types(show_threshold=None)
---------------------------------------------------------------------------
NameError Traceback (most recent call last)
Cell In[81], line 1
----> 1 okg.plot_node_types(show_threshold=None)
File /mnt/raidbio/extproj/projekte/regulatory_networks/scripts/../mikg/kgraph.py:308, in KGraph.plot_node_types(self, show_threshold)
304 ntCounter = self.get_node_types()
306 counteritems = [("{}\nn={}".format(x, ntCounter[x]), ntCounter[x]) for x in ntCounter]
--> 308 self._plot_pie(filtereditems, show_threshold=show_threshold)
NameError: name 'filtereditems' is not defined
[15]:
#
## Do some stats
#
[16]:
kg = KGraph()
kg.load_kgraph("../data/initial_base_graph.out")
[17]:
exprDF = pd.read_csv("../seq_data/expression_mean_df.tsv", sep="\t")
cmDF = exprDF[exprDF.group == "Cardiomyocyte"]
cmDF
[17]:
| group | gene | min | percentile_25 | median | percentile_75 | max | mean | num | sd | group_cells | perc_expr | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 22891 | Cardiomyocyte | A1BG | 0.218642 | 0.439190 | 0.607427 | 0.831411 | 2.456248 | 0.709995 | 351 | 0.395967 | 64510 | 0.005441 |
| 22892 | Cardiomyocyte | A1BG-AS1 | 0.214143 | 0.456117 | 0.643483 | 0.936906 | 3.038826 | 0.806031 | 461 | 0.518502 | 64510 | 0.007146 |
| 22893 | Cardiomyocyte | A1CF | 0.208636 | 0.422485 | 0.557386 | 0.773439 | 3.025672 | 0.637636 | 706 | 0.321588 | 64510 | 0.010944 |
| 22894 | Cardiomyocyte | A2M | 0.181245 | 0.651118 | 0.944811 | 1.398837 | 3.792171 | 1.075190 | 32973 | 0.547520 | 64510 | 0.511130 |
| 22895 | Cardiomyocyte | A2M-AS1 | 0.185317 | 0.412732 | 0.539294 | 0.709554 | 2.699968 | 0.602207 | 3160 | 0.286947 | 64510 | 0.048985 |
| ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... | ... |
| 50958 | Cardiomyocyte | ZXDC | 0.185317 | 0.610198 | 0.829333 | 1.097115 | 3.521134 | 0.891553 | 35191 | 0.378761 | 64510 | 0.545512 |
| 50959 | Cardiomyocyte | ZYG11A | 0.224826 | 0.414667 | 0.540848 | 0.712375 | 2.653949 | 0.637458 | 303 | 0.367307 | 64510 | 0.004697 |
| 50960 | Cardiomyocyte | ZYG11B | 0.187795 | 0.600248 | 0.812252 | 1.080384 | 3.494183 | 0.880513 | 33025 | 0.386580 | 64510 | 0.511936 |
| 50961 | Cardiomyocyte | ZYX | 0.193169 | 0.445595 | 0.595571 | 0.835346 | 3.001737 | 0.705213 | 5338 | 0.395080 | 64510 | 0.082747 |
| 50962 | Cardiomyocyte | ZZEF1 | 0.187407 | 0.610938 | 0.826084 | 1.094331 | 3.502734 | 0.895771 | 35267 | 0.390543 | 64510 | 0.546690 |
28072 rows × 12 columns
[18]:
exprDFs = {}
for group in exprDF.group.unique():
exprDFs[group] = exprDF[exprDF.group == group].copy()
print([x for x in exprDFs])
['Adipocyte', 'Cardiomyocyte', 'Cycling cells', 'Endothelial', 'Fibroblast', 'Lymphoid', 'Mast', 'Myeloid', 'Neuronal', 'Pericyte', 'vSMCs']
[19]:
kg.add_gene_expression(cmDF)
Measured Genes 28072
Found Genes 19730
[20]:
mNS = MeanNetworkScorer()
mNS.score_nodes_from_properties(kg)
mNS.score(kg)
/mnt/raidbio/extproj/projekte/regulatory_networks/scripts/../mikg/kgraph.py:1575: RuntimeWarning: invalid value encountered in scalar divide
edge_zscore = (edge_score-etype2mean[etype])/etype2std[etype]
[21]:
def get_score(x):
if "gene" in x.get("type", []):
return x.get("score", 0)
else:
return x.get("score", 0)
[22]:
kg.get_node_types()
[22]:
Counter({'geneset': 55163,
'gene': 23682,
'gene;measured_expression': 18308,
'disease': 7781,
'drug': 3195,
'TF;gene;measured_expression': 1405,
'miRNA;ncRNA': 593,
'geneset;subcellular_location': 557,
'TF;gene': 225,
'disease;geneset': 61,
'lncRNA;ncRNA': 36,
'gene;lncRNA;measured_expression;ncRNA': 17,
'gene;lncRNA;ncRNA': 9})
[23]:
kg.plot_node_attribute_distribution(get_score)
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
[24]:
kg.plot_node_attribute_distribution(get_score, node_types=["drug"])
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
[25]:
kg.plot_edge_attribute_distribution(edge_types=[("gene", "gene")], score_accessor=lambda x: x.get("score", 0))
No artists with labels found to put in legend. Note that artists whose label start with an underscore are ignored when legend() is called with no argument.
[26]:
kg.plot_score_histogram(edge_types=[("gene", "gene")], score_accessor=lambda x: x.get("score", 0))
[27]:
kg.plot_score_histogram(edge_types=[("gene", "gene")], score_accessor=lambda x: x.get("score_zscore", 0))
[28]:
kg.plot_score_histogram(edge_types=[("gene", "geneset")], score_accessor=lambda x: x.get("score_zscore", 0))
[29]:
kg
[29]:
KGraph KGraph with 111032 nodes and 1617389 edges
[30]:
kg.plot_score_histogram(score_accessor=lambda x: x.get("score_zscore", 0))
[31]:
kg.plot_score_histogram(edge_types=[("gene", "gene")], score_accessor=lambda x: x.get("score_zscore", 0))
[32]:
kg.plot_score_histogram(edge_types=[("gene", "disease")], score_accessor=lambda x: x.get("score_zscore", 0))
[33]:
kg.plot_score_histogram(edge_types=[("gene", "geneset")], score_accessor=lambda x: x.get("score_zscore", 0))
[56]:
kg.plot_score_violin(per_edge_type=True, single_edge_types=True, score_accessor=lambda x: x.get("score", 0), figsize=(16, 3))
Caution: if an edge's nodes have multiple node types, its score is attributed to the product of all node-types.
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/mnt/raidbio/extproj/projekte/regulatory_networks/scripts/../mikg/kgraph.py:821: UserWarning: set_ticklabels() should only be used with a fixed number of ticks, i.e. after set_ticks() or using a FixedLocator.
[57]:
kg.plot_score_violin(per_edge_type=True, single_edge_types=True, score_accessor=lambda x: x.get("score_zscore", 0), figsize=(16, 3))
Caution: if an edge's nodes have multiple node types, its score is attributed to the product of all node-types.
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/home/j/joppich/.local/lib/python3.11/site-packages/seaborn/_base.py:948: FutureWarning: When grouping with a length-1 list-like, you will need to pass a length-1 tuple to get_group in a future version of pandas. Pass `(name,)` instead of `name` to silence this warning.
data_subset = grouped_data.get_group(pd_key)
/mnt/raidbio/extproj/projekte/regulatory_networks/scripts/../mikg/kgraph.py:821: UserWarning: set_ticklabels() should only be used with a fixed number of ticks, i.e. after set_ticks() or using a FixedLocator.
[36]:
kg.plot_score_histogram(edge_types=[("gene", "drug")], score_accessor=lambda x: x.get("score_zscore", 0))
[37]:
kg.plot_edge_sources()
[46]:
kg.plot_node_types()
[39]:
kg.plot_edge_types()
[40]:
kg.plot_edge_between_types()
[59]:
kg.plot_node_children()
[ ]:
[41]:
kg.plot_node_children("drug")
[42]:
kg.plot_node_children("disease")
[43]:
kg.plot_node_children("gene")
