lgeistlinger EnrichmentBrowser issues

lgeistlinger / EnrichmentBrowser

Seamless navigation through combined results of set-based and network-based enrichment analysis

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Add support for obtaing gene sets from rummagene

#52 lgeistlinger closed 6 months ago
1
EnrichmentBrowser and scRNA-seq data - how to?

#51 tim-meese opened 8 months ago
1
Error running topologygsa: is.DAG(gr) throwing "Input must be a matrix or a dgCMatrix"

#50 ChangqingW opened 8 months ago
0
Error in .org2pkg(anno): unrecognized organism ID 'mcf'

#49 Shi-YuZhang opened 1 year ago
1
Error in `collect()`: ! Failed to collect lazy table.

#48 Shi-YuZhang closed 1 year ago
2
Can Enrichment Browser use fgsea

#47 tobbyxy opened 1 year ago
0
NetGSA no longer works

#46 cpuritz opened 1 year ago
0
getGenesets returns a list of empty named lists when calling mice KEGG genesets

#45 OliveIsLazy closed 1 year ago
3
Enrichmentbrowser rmd

#44 Rohit-Satyam closed 1 year ago
12
Vignette Conversation Request

#43 Rohit-Satyam closed 2 years ago
2
Fix bug in '.getMSigDB' function

#42 vdsukhov closed 3 years ago
5
error with eaBrowse

#41 ZHIDIHUAYUAN closed 3 years ago
6
Running deAna() using decimal (non-integer) counts with DESeq2 method

#40 haghshenas closed 3 years ago
5
Function and KEGG species id not working

#39 Fuad59 closed 3 years ago
8
Support for plots from the enrichplot package?

#38 jorainer opened 3 years ago
2
Compatibility with MSigDB 7.2

#37 GabrielHoffman closed 3 years ago
2
KEGG gene set names are inconsiset

#36 GabrielHoffman closed 4 years ago
2
Option for hierarchical definition of GO gene sets

#35 lgeistlinger closed 3 years ago
1
Why is GAGE not an implemented method?

#34 tmms1 closed 4 years ago
2
Integrating getGenesets with idMap

#33 lgeistlinger closed 4 years ago
3
caching recalls wrong object type

#32 GabrielHoffman closed 4 years ago
4
getGenesets fails with enrichr

#31 GabrielHoffman closed 4 years ago
3
Issue loading MSigDB

#30 GabrielHoffman closed 4 years ago
2
import: experimental designs with more than one covariate

#29 lgeistlinger opened 4 years ago
0
Multiple factor experiments (non-binary).

#28 grabearummc opened 4 years ago
6
How can I make use of DESeq2's normalization factors during import?

#27 lgeistlinger closed 4 years ago
1
Import from limma-trend approach

#26 lgeistlinger closed 4 years ago
2
Error catching with new import function.

#25 grabearummc closed 4 years ago
3
ENSEMBL ID version conversion

#24 grabear closed 4 years ago
9
Importing DGE data into EnrichmentBrowser

#23 grabearummc closed 4 years ago
14
Add "neat" among the nbeaMethods available in nbea

#22 mirkosignorelli closed 4 years ago
1
Create neat.R

#21 mirkosignorelli closed 4 years ago
1
Trace back ID mapping

#20 lgeistlinger closed 5 years ago
1
Dead link in webinterface

#19 bromberglab-services opened 5 years ago
0
eaBrowse error with S. cerevisiae org.db

#18 matrs closed 5 years ago
4
Make Output Friendly with Shiny?

#17 whtns opened 5 years ago
1
Including batch effect correction

#16 ktmf1991 closed 5 years ago
7
Already have DE gene lists

#15 fcamus closed 5 years ago
3
Optionally create index page also for eaBrowse

#14 lgeistlinger closed 6 years ago
4
error in eaBrowse when there are no significant gene sets

#13 olkap closed 6 years ago
2
error in ebrowser when a dplyr library is loaded

#12 olkap closed 6 years ago
2
Non-integer RNASeq data pass to deAna() when de.method = "limma"

#11 mctseng2 closed 6 years ago
1
Problem with creating image for hsa04215 KEGG pathway in ebrowser

#10 olkap closed 6 years ago
9
Annotation package not found using readSE

#9 approximately-normal closed 6 years ago
2
Request: ability to change output directory and .html file name

#8 jdrnevich closed 6 years ago
4
Error appears when using gsea in ebrowser

#7 olkap closed 6 years ago
5
idMap/.idmap not giving the correct numbers of genes lost during conversion

#6 jdrnevich closed 6 years ago
8
SPIA fix not correctly implemented in 2.10.3

#5 Ju-Rien closed 6 years ago
2
I'm having trouble with NetGSA

#4 Ju-Rien closed 4 years ago
4
SPIA file connection error

#3 Ju-Rien closed 6 years ago
1