churchmanlab genewalk issues

churchmanlab / genewalk

GeneWalk identifies relevant gene functions for a biological context using network representation learning

https://churchman.med.harvard.edu/genewalk

BSD 2-Clause "Simplified" License

128 stars 15 forks source link

issues

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Update link to PC12 resource

#76 bgyori closed 3 months ago
1
gzip.BadGzipFile: Not a gzipped file (b'<!') | pandas.errors.EmptyDataError: No columns to parse from file

#75 Cameron-Nguyen1 closed 3 months ago
1
Update URLs to HTTPS

#74 bgyori closed 5 months ago
0
extending to KEGG

#73 lli-rice closed 5 months ago
1
Add .readthedocs.yaml file

#71 ri23 closed 1 year ago
0
Problem with genewalk

#70 damhanalla closed 1 year ago
0
Update2023

#69 ri23 closed 1 year ago
0
AttributeError: module 'typing' has no attribute 'NoReturn

#68 ri23 closed 2 years ago
3
Use comment instead of skiprows when loading GOA

#61 bgyori closed 3 years ago
0
GO annotations file comment rows have changed

#60 bgyori closed 3 years ago
1
Code for regulator/moonlighter plots

#49 npokorzynski closed 3 years ago
4
Mouse ids are not working with genewalk?

#48 Anara2018 closed 3 years ago
1
Limit gensim version to < 4 for compatibility

#47 bgyori closed 3 years ago
0
Error when calling word2vec: unexpected keyword argument 'size'

#46 ri23 closed 3 years ago
2
GO Terms

#45 npokorzynski closed 3 years ago
1
Trouble Using GeneWalk

#44 SinjaFan closed 3 years ago
2
Test CLI directly

#43 bgyori closed 3 years ago
0
INDRA script generation

#42 xandmac closed 3 years ago
2
Enable GeneWalk to run on non-human-mapped gene IDs and networks

#41 bgyori closed 3 years ago
0
Extend support for custom SIF input networks

#40 bgyori closed 3 years ago
0
Test with and without INDRA

#39 bgyori closed 3 years ago
0
Add support for rat gene lists using RGD

#38 bgyori closed 3 years ago
0
No regulators identified?

#37 npokorzynski closed 3 years ago
4
Integrate HGNC resources

#36 bgyori closed 3 years ago
0
Add rows for genes with no GO annotations to results spreadsheet

#35 bgyori closed 3 years ago
0
IndexError: list index out of range

#34 eskederks closed 3 years ago
2
Criteria for barplot output

#33 npokorzynski closed 3 years ago
8
AttributeError: type object 'object' has no attribute 'dtype'

#32 vertesy closed 3 years ago
2
Install issue

#31 npokorzynski closed 3 years ago
8
network source file

#30 amitpande74 closed 3 years ago
4
Illustration of the GeneWalk network

#29 izu0421 closed 3 years ago
4
Installation failed.

#28 alhafidzhamdan closed 3 years ago
6
Rat genome

#27 amitpande74 closed 3 years ago
1
rdflib=4.2.2 and python 3 version conflict

#26 tmargus closed 3 years ago
2
ML

#25 Vashar20 closed 3 years ago
1
Don't download all resources up front

#24 bgyori closed 3 years ago
0
Add end-to-end test for CLI

#23 bgyori closed 3 years ago
0
Plotly

#22 ri23 closed 3 years ago
0
Generate plots for results

#21 bgyori closed 3 years ago
0
Increase Python version requirement and move testing

#20 bgyori closed 3 years ago
0
Adapt to INDRA v18

#19 bgyori closed 4 years ago
0
Entrez

#18 johnbachman closed 4 years ago
0
ensembl_id

#17 marttine closed 5 years ago
1
Error while downloading resources - PathwayCommons11.All.hgnc.sif.gz

#16 leiendeckerlu closed 5 years ago
7
compiling the resource folder - error

#15 jrconner16 closed 5 years ago
8
Importing the numpy c-extensions failed.

#14 gitpycode closed 5 years ago
0
Handle Ensembl ID suffixes and error if ID mapping failed

#13 bgyori closed 5 years ago
0
Ensembl IDs with dots cause problems

#12 chrarnold closed 5 years ago
4
Start testing on Travis

#11 bgyori closed 5 years ago
0
Visualization of the results

#10 chrarnold closed 5 years ago
7