issues
search
BaderLab
/
EnrichmentMapApp
The EnrichmentMap Cytoscape App allows you to visualize the results of gene-set enrichment as a network.
http://apps.cytoscape.org/apps/enrichmentmap
GNU Lesser General Public License v2.1
31
stars
12
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Mastermap with enrichmentmap of Great results: gs_size should be changed to be TotalGenes instead of ObsGenes TotalGenes
#495
veroniquevoisin
closed
1 year ago
6
enhancement RCy3: enrichmentmap build with Great: not able to filter using binomial q value (only hypergeometric test available)
#494
veroniquevoisin
closed
1 year ago
1
Add ability to create subnetwork from visible nodes.
#493
mikekucera
closed
1 year ago
1
Issue using enrichment map columns in Cytoscape formula builder
#492
risserlin
closed
1 year ago
3
question or enhancement: gene set signature cut-off:can't filter less than 0.001 or 0.0001
#491
veroniquevoisin
closed
1 year ago
0
July gene sets (at least the Human ones) are missing the genes
#490
toddajohnson
closed
2 years ago
2
g:profiler not running
#489
risserlin
closed
1 year ago
11
Change "Fill Color" only change the edge color not node color
#488
Zejian-Wang
closed
2 years ago
2
Bump gson from 2.8.0 to 2.8.9 in /EnrichmentMapPlugin
#487
dependabot[bot]
opened
2 years ago
0
Enrichmentmap combine datasets from R
#486
alievakrash
closed
1 year ago
8
Failed installation from App Manager
#485
thielde
closed
2 years ago
2
Bump logback-core from 0.9.29 to 1.2.9 in /EnrichmentMapIntegrationTest
#484
dependabot[bot]
opened
2 years ago
0
Bump jackson-databind from 2.2.2 to 2.12.6.1 in /EnrichmentMapPlugin
#483
dependabot[bot]
closed
1 year ago
1
EM session not restoring after save
#482
risserlin
closed
2 years ago
10
"EnrichmentMap - show in pathway commons Functionality" - add input panel so user can control what is used in painter
#481
risserlin
opened
2 years ago
0
"EnrichmentMap - show in pathway commons Functionality" - overlap metrics not informative
#480
risserlin
opened
2 years ago
0
"EnrichmentMap - show in pathway commons Functionality" - no expression data needs an error message
#479
risserlin
opened
2 years ago
0
EnrichmentMap - show in pathway commons Functionality - Better documentation needed
#478
risserlin
opened
2 years ago
1
Bump apache-karaf from 4.2.1 to 4.3.6 in /EnrichmentMapIntegrationTest
#477
dependabot[bot]
closed
1 year ago
1
Customizing heat strips
#476
ravipatel4
closed
2 years ago
4
More than 2 datasets using RCy3
#475
ravipatel4
closed
2 years ago
3
Seeing which datasets a given node is associated with (major issue when using 20+ datasets)
#474
risserlin
closed
2 years ago
1
No longer able to create an enrichment map with just a gmt file
#473
risserlin
closed
2 years ago
2
Bump jackson-databind from 2.2.2 to 2.9.10.8 in /EnrichmentMapPlugin
#472
dependabot[bot]
closed
2 years ago
1
GSEAtutorial.zip not working with EnrichmentMap
#471
ARW-UBT
closed
2 years ago
2
how to create an expression matrix to run on enrichment map?
#470
rosafontana
closed
2 years ago
3
Enrichment Map doesn't work well in Cytoscape
#469
rosafontana
closed
2 years ago
12
Color By Data Set: Change Colors... Is it possible to make this option change the node color only?
#468
veroniquevoisin
closed
1 year ago
1
R shiny issue building EM via mastermap
#467
rosscm
closed
2 years ago
1
Bump logback-classic from 0.9.29 to 1.2.0 in /EnrichmentMapIntegrationTest
#466
dependabot[bot]
opened
3 years ago
0
Bump logback-core from 0.9.29 to 1.2.0 in /EnrichmentMapIntegrationTest
#465
dependabot[bot]
closed
2 years ago
1
Bump httpclient from 4.5.6 to 4.5.13 in /EnrichmentMapPlugin
#464
dependabot[bot]
opened
3 years ago
0
API command enrichmentmap dataset color returns error
#463
rosscm
closed
2 years ago
3
post-analysis with a 4 datasets: showing edges for all datasets even if just one is selected
#462
veroniquevoisin
closed
1 year ago
0
using enrichment map for GSEA result
#461
SunYYQQ
closed
2 years ago
12
EnrichmentMap with GSEA shows URLs in the geneset names
#460
komalsrathi
closed
3 years ago
2
What is the difference between EnrichmentMap::Genes and EnrichmentMap::Enrichment_Genes
#459
risserlin
closed
2 years ago
1
New Feature: annotate post analysis edges with overlap
#458
risserlin
closed
3 years ago
4
Issues using upload_em_file from Windows in EM 3.3.2 beta
#457
risserlin
closed
2 years ago
1
Update the read the docs tutorial to use updated GSEA data
#456
risserlin
closed
1 year ago
2
Add command to specify the color associated to each dataset
#455
risserlin
closed
3 years ago
0
Custom fill nodes by dataset
#454
rosscm
closed
3 years ago
4
"EnrichmentMap" menu item in Apps menu should always bring up create dialog.
#453
mikekucera
closed
3 years ago
0
chart data -> pvalue or q-value colors in the wrong direction
#452
risserlin
closed
2 years ago
6
When you change the colours for the datasets in EM - resets style
#451
risserlin
closed
3 years ago
0
Clicking on post anlaysis node does not show heat map
#450
risserlin
closed
3 years ago
2
Auto-recognize datasets not recognizing Bingo input file
#449
risserlin
closed
3 years ago
1
Update App to Java 11.
#448
mikekucera
closed
3 years ago
0
DAVID/BINGO/Great import gives error "Enrichments file or GMT file is required"
#447
kjbussey
closed
3 years ago
2
Add option to colour by significant NES only
#446
risserlin
closed
3 years ago
5
Previous
Next