YuLab-SMU ReactomePA issues

YuLab-SMU / ReactomePA

Reactome Pathway Analysis

https://yulab-smu.top/biomedical-knowledge-mining-book/

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issues

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gsePathway giving "Error in check_gene_id(geneList, geneSets)"

#43 pschumann4 closed 2 weeks ago
2
update CITATION

#42 Clearmind777 closed 8 months ago
0
can Arabidopsis run this function?

#41 LongYuan0529 opened 11 months ago
0
P-value correction for multiple testing necessary?

#40 L3ft2di3 opened 1 year ago
0
Support passing a GSON object to `enrichPathway(organism)` and `gsePathway(organism)`

#39 huerqiang closed 2 years ago
3
ReactomePA plot label text overlap

#38 Jay-Leung opened 2 years ago
0
Support non decreasing sorts in reactome pathway analysis

#37 Nelson-Gon opened 2 years ago
0
Avoid using assign in setting ReactomePA's environment variable

#36 Nelson-Gon closed 2 years ago
2
Specify minimal package versions in the Description file

#35 Nelson-Gon opened 2 years ago
2
Remove deprecated calls to guide=FALSE

#34 Nelson-Gon closed 2 years ago
0
Difference between Kobas-i, Reactome website and ReactomePA (may caused by duplicated background genes)

#33 Freya-Cui-2020 opened 2 years ago
0
No gene can be mapped with gsePathway

#32 alexandrafleming closed 2 weeks ago
2
fix startup link

#31 aljabadi closed 3 years ago
1
WES data

#30 IvanaOsredek opened 3 years ago
0
organism avaialble?

#29 camilla0801 opened 3 years ago
0
support for plants?

#28 Polligator closed 2 years ago
1
NO plot output + enrichPathway error

#27 camilla0801 closed 2 years ago
1
enrichPathway

#26 ale07alvarez opened 4 years ago
0
update for fgsea

#25 huerqiang closed 4 years ago
0
"No gene can be mapped" when running enrichPathway

#24 RuiyangLiu94 opened 4 years ago
4
one gene kills the pathway

#23 under-score closed 2 years ago
2
Working with more than one gene list

#22 kasumaz closed 2 years ago
1
Cannot extract results from enrichPathway

#21 ibichind opened 5 years ago
4
install issue

#20 xiaowenchenjax closed 5 years ago
1
Cannot change cnetplot edge thickness and color

#19 wasimaftab opened 6 years ago
2
gnutls_handshake() failed: Handshake failed

#18 laixn closed 6 years ago
3
No gene can be mapped, return NULL

#17 ulapei closed 6 years ago
2
gene symbols not being seen with viewPathway calls using openCPU+apache+R3.5+ubuntu18.04

#16 viswam78 closed 6 years ago
3
fold change color palette on viewPathway is inconsistent

#15 viswam78 closed 6 years ago
1
No overrepresented genes (but I see significant p-values)

#14 fcamus closed 6 years ago
1
Unable to produce graphics with enrichMap()

#13 tiroshamit opened 6 years ago
0
enrichPathway make readable does not work for yeast genome

#12 snystrom opened 7 years ago
7
problems with visualizing results

#11 guidohooiveld closed 7 years ago
5
Input structure of Gene Set Enrichment Analysis

#10 sajjad6al opened 7 years ago
6
very different results with upgrade of R

#9 psudmant closed 7 years ago
1
No results returned

#8 ibichind closed 8 years ago
4
bump version

#7 LiNk-NY closed 8 years ago
1
Exporting getDb

#6 LiNk-NY closed 8 years ago
10
feature request: Mapping of Metabolites

#5 topialla closed 7 years ago
1
Error in ReactomePA

#4 dfv closed 8 years ago
3
installation from Github

#3 YulongNiu closed 8 years ago
3
reference to ellipsis pars

#2 vladpetyuk closed 9 years ago
0
enabling other organisms

#1 vladpetyuk closed 9 years ago
1