saezlab decoupler-py issues

saezlab / decoupler-py

Python package to perform enrichment analysis from omics data.

https://decoupler-py.readthedocs.io/

GNU General Public License v3.0

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issues

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psbulk_counts are associated with top PCs

#138 singlecellfan opened 4 days ago
3
module 'decoupler' has no attribute 'plot_network'

#137 linanzhang opened 6 days ago
1
updates f-array

#136 Intron7 closed 1 week ago
0
numba version 0.60.0

#135 Intron7 closed 1 week ago
6
Transition to `poetry` + address `numpy 2.0` and `numba 0.60` related issues

#134 deeenes closed 1 week ago
4
Inferring TF activity using custom GRN

#133 AmelZulji closed 5 days ago
4
GSEA handling missing genes

#132 tboen1 opened 2 weeks ago
5
Issue with omnipath and dc.translate_net(msigdb, target_organism = 'mouse', unique_by = ('geneset', 'genesymbol'))

#131 dantyrr closed 1 week ago
3
Detection of type of alteration in each signaling pathway in each cell type

#130 ngvananh2508 closed 1 week ago
6
keyerror when running dc.get_ora_df

#129 wangjiawen2013 closed 1 month ago
1
Progeny mouse 'Invalid block type' error

#128 eaboelno closed 1 week ago
4
matplotlib.cm.get_cmap is removed from version 3.9

#127 zhaleh-safikhani closed 1 week ago
2
ORA analysis get hung in jupyter notebook

#126 zhaleh-safikhani closed 1 week ago
1
plot_network doesnt return a graph with right node/edge visual styles

#125 zhaleh-safikhani closed 1 month ago
1
Getting pval=0 for various enriched pathways after running GSEA

#124 saksham132 closed 1 month ago
2
Problem when using dc.get_contrast()

#123 derekchen7 closed 1 month ago
2
Progeny pvals

#122 nicolebussola closed 1 month ago
1
Gene Symbols from Ensembl or custom source + better handling of identifiers and orthology translation

#121 deeenes closed 1 month ago
1
why ulm (and not mlm) for transription factor activities ? there must be some overlaps

#120 Sophon-0 closed 1 month ago
1
plot_network function top target

#119 Sophon-0 closed 1 month ago
1
Is run_aucell thread-safe to run in a multi-threaded script?

#118 pcm32 closed 2 months ago
3
run_ulm on TF with only positively regulated target genes

#117 ken-chen-18 closed 2 months ago
2
dc.run_mlm only returning data for 1 source

#115 aalockhart1 closed 3 months ago
2
Update Dockerfile

#113 Nic-Nic closed 3 months ago
0
PLOT issues

#114 Sophon-0 closed 2 months ago
2
Docker building via github action

#112 gabora closed 3 months ago
0
Verbose output from bencharking pipeline seems to say 'for 25 unique sources' despite more sources

#111 IBMB-MFP closed 3 months ago
2
Cannot convert gene symbol to rat

#110 wangjiawen2013 closed 3 months ago
5
Error while translating human to mouse MSigDB

#109 wbrett87 closed 2 months ago
6
Failed to download `CollecTRI` from OmniPath. Invalid value `loops` for `InteractionsQuery`. AttributeError: module 'omnipath' has no attribute 'static'

#108 clg12 closed 2 months ago
1
copy.deepcopy() in get_contrast()

#107 wan-nie closed 3 months ago
2
Nan values in benchmarking pipeline still give error - Decoupler v 1.6

#106 IBMB-MFP closed 3 months ago
2
EOFError: Compressed file ended before the end-of-stream marker was reached

#105 ChangLu92 closed 3 months ago
2
decoupler.plot_barplot ax

#104 annita-louloupi closed 3 months ago
3
Flag for sorting of gene names

#103 leoTiez closed 4 months ago
4
Loading resources for mouse is not working

#102 riederd closed 3 months ago
9
run_ora_df

#101 mcjmigdal closed 5 months ago
2
Fix formatting

#100 Zethson closed 5 months ago
1
Limiting usage of cores or threads

#99 racng closed 6 months ago
2
Announcement: some Galaxy modules for some decoupler functionalities

#97 pcm32 closed 6 months ago
1
Tutorial clustermap changed to Marsilea

#96 shuang1330 closed 4 months ago
2
dc.get_collectri() does not work

#95 FADHLyemen closed 7 months ago
2
Functional PB Tutorial fails at dc.plot_associations

#94 jan-engelmann closed 6 months ago
5
ValueError: Invalid value `loops` for `InteractionsQuery` in dc.get_collectri()

#93 GERMAN00VP closed 7 months ago
2
dc.get_progeny(organism = 'mouse') fails with ImportError

#92 riederd closed 7 months ago
5
Get gene markers used to annotate the cell type

#91 ryrl9703 closed 6 months ago
2
Method dc.run_gsva error

#90 chuiqin closed 7 months ago
2
Pseudobulk for each sample

#89 SNOL2 closed 7 months ago
2
method run_gsea() error : SystemError: CPUDispatcher(<function nb_gsea at 0x7f7477d3b9c0>) returned a result with an exception set

#88 nicolas-zimmermann closed 7 months ago
6
shuffle_net output not random

#87 IBMB-MFP closed 7 months ago
1