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saezlab
/
decoupleR
R package to infer biological activities from omics data using a collection of methods.
https://saezlab.github.io/decoupleR/
GNU General Public License v3.0
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decoupler script crashes because it uses all CPUs
#136
ahmedasadik
opened
3 weeks ago
1
Error in `rlang::set_names()` get_progeny mouse
#135
bioshot-dotcom
opened
1 month ago
2
Vignettes: Code refactoring and Figure enhancements.
#134
enblacar
opened
1 month ago
0
added z-score method
#133
smuellerd
opened
1 month ago
0
Error in do.call(stop, list(m), envir = env)
#132
Megan0921
closed
1 month ago
2
Subscript out of bounds error
#130
savagesr
opened
2 months ago
10
get_progeny and organism = 'mouse' reports an error
#129
fedenichetti
closed
2 months ago
2
get_progeny fails when using `organsim = "mouse"`
#128
Christian-Heyer
closed
3 months ago
10
run_ulm taking very long to run and no feedback on progress
#127
gilstel
closed
2 months ago
3
Can't get PROGENy model by get_progeny
#126
leeyangyangyang
closed
3 months ago
7
GSVA error
#125
victorcat4
closed
2 months ago
1
added option to load meta data
#123
smuellerd
closed
4 months ago
0
TF target genes in decoupleR analysis of scRNA-seq data
#122
JinSooJoo
closed
4 months ago
3
Error in get_collectri()
#121
FoMooo
closed
5 months ago
2
differential expression analysis and GSEA
#119
Sophon-0
opened
5 months ago
8
TF analysis between conditions scRNA
#118
kiwipeel
closed
4 months ago
9
scRNA TF activity inference
#117
SofyaMa
closed
6 months ago
2
High TF activity with few significant genes
#116
laurie-tonon
closed
4 months ago
3
get_collectri is not able to fetch the right organism
#115
tamerbio
closed
6 months ago
6
Transcription factor activity inference
#114
ramyavenk
closed
6 months ago
2
Number of matched genes in pathway analysis
#113
kiwipeel
closed
6 months ago
1
Pathway activity inference from scRNA-seq tutorial produces wrong results?
#112
kiwipeel
closed
6 months ago
1
Question about TF activity inference analysis in single cell integrated datasets
#111
ChrisTzaferis
closed
6 months ago
2
Problems to understand the analysis of the tutorial
#110
Gregjlt
closed
6 months ago
3
get_collectri is hard coded for human
#109
karJac
closed
8 months ago
2
Use FindAllMarkers to detect top TFs per cluster in scRNA data
#108
akramdi
closed
7 months ago
1
Error after get_resource() and check_repeated_edges(network)
#107
sciotlos
closed
7 months ago
2
TF activities in single-cell: `run_ulm` takes too long
#106
nicholaslimwy
closed
8 months ago
2
Error: error in `str_to_upper()` OmnipathR
#105
maartenciers
closed
9 months ago
2
DESeq2 input for Transcription factor activity inference in bulk RNA-seq
#104
t1nnenissen
closed
7 months ago
1
How to deal with gene readouts that are biased by gene length?
#103
jgoldmann
closed
9 months ago
2
get_collectri ignores organism parameter setting
#102
woblkilr
closed
9 months ago
4
Update README.md
#101
adugourd
closed
9 months ago
0
Are TPMs better than counts for the linear model?
#100
andreyurch
closed
9 months ago
1
GSEA_analysis
#99
mms100
closed
9 months ago
7
Network is empty after intersecting it with mat
#98
JinSooJoo
closed
10 months ago
8
Error in `map2()`
#97
noranekonobokkusu
closed
10 months ago
2
Interpretation of TF Activity
#96
lizzyjoan
closed
10 months ago
2
get_collectri error
#95
t1nnenissen
closed
11 months ago
5
Prepare for upcoming Seurat v5 release
#94
Gesmira
closed
4 months ago
0
Pamgene S100 values to t-values
#93
DuruTuncer
closed
9 months ago
1
how to compute the pathway activity score for the pathway if I do not have the pathway genes weight
#92
FADHLyemen
closed
10 months ago
4
progeny vs decoupleR packages: which scores are trustworthy?
#91
ismailelshimy
closed
1 year ago
1
Can't fetch Dorothea regulons
#90
SophieGaiani
closed
1 year ago
2
Input for bulk analysis: taking or not the log of the normalized counts?
#89
merlevede
closed
1 year ago
3
get_collectri orgaism="mouse" return "human"
#87
Pazuzzilla
closed
1 year ago
10
rationale behind using limma for bulk RNAseq TF inference?
#86
erzakiev
closed
1 year ago
4
Error when running run_wmean for transcription factor activity inference
#85
TrmMelanoma
closed
1 year ago
5
How to understand the `weight` and `p_value` in the result of get_progeny.
#84
xiangpin
closed
1 year ago
1
get_collectri doesn't use organism argument
#83
majorkazer
closed
1 year ago
2
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