Showing : GSEABase • reset
1
vote
1
reply
830
views
Cleaning GeneSets from GSEA
msigdb GSEABase GSVA
updated 18 months ago by ★ 3.0k • written 18 months ago by • 0
3
votes
1
reply
830
views
GSEABase::getBroadSets returns error with the latest MSigDB version
GSEABase
updated 2.8 years ago by 25k • written 2.8 years ago by ▴ 60
7
votes
11
replies
1.8k
views
Updating Gene Annotation in GeneSetCollection {GSEABase}
GSEABase annotation gsea gsva GeneSetCollection
updated 3.4 years ago by ★ 3.0k • written 3.4 years ago by ▴ 60
3
votes
4
replies
950
views
GSEABase - Map gene/transcript IDs to GOslims?
gseabase go gene ontology goslim
3.6 years ago • updated 6 months ago samwhite ▴ 20
7
votes
9
replies
2.0k
views
GSEABase - View/extract GO terms mapped to each GOslim
go GSEABase GOslim gene ontology
3.6 years ago • updated 6 months ago samwhite ▴ 20
0
votes
3
replies
1.3k
views
GO enrichment for non-model plant species
clusterProfiler GSEABase GMTfiles
4.2 years ago sandeep.amberkar18 ▴ 10
2
votes
2
replies
1.2k
views
GSEABase: how to extract shortDescription from GeneSetCollection object
GSEABase
updated 4.4 years ago by 25k • written 4.4 years ago by ★ 3.7k
1
vote
0
replies
1.6k
views
Tutorial: Update gene symbols in GeneSetCollection
gseabase msigdb genesetcollection Tutorial
5.3 years ago t.kuilman 170
0
votes
3
replies
1.5k
views
Issues in generating workable rank file for GSEA
pre-ranked GSEA DESeq2 gseabase GSEA
updated 5.3 years ago by 40k • written 5.3 years ago by • 0
2
votes
3
replies
1.2k
views
convert Gene collection to gene list for camera function
limma GSEABase
updated 5.6 years ago by 63k • written 5.6 years ago by • 0
2
votes
2
replies
1.2k
views
Error thrown by GSEABase::getBroadSets function: Error: 'getBroadSets' failed to create gene sets: invalid BroadCollection category: 'archived'
GSEABase getBroadSets invalid BroadCollection category archived MSigDB v6.1
updated 5.8 years ago by ★ 3.0k • written 5.8 years ago by ▴ 50
1
vote
2
replies
1.7k
views
RESOLVED- GSEAbase: problem with GOCollection (getAnnMap: package GO not availale)
gene ontology gseabase
6.0 years ago maeva.mollion • 0
0
votes
0
replies
878
views
Does GSEABase support organismDb objects?
GSEABase
6.2 years ago sandmann.t ▴ 70
0
votes
2
replies
1.5k
views
Problem with GeneSetCollection after updating R devel packages.
bug gseabase example
6.6 years ago jcrodriguez ▴ 20
2
votes
2
replies
1.0k
views
Using GeneSetCollection objects of GSEABase in piano package
piano gseabase
6.7 years ago Lluís Revilla Sancho ▴ 720
2
votes
3
replies
1.0k
views
Probable bug in GSEABase package.
software error bug gseabase
6.7 years ago jcrodriguez ▴ 20
0
votes
2
replies
1.2k
views
Question on GeneSetCollection in GSEABase
gseabase geneset
updated 6.7 years ago by 25k • written 6.7 years ago by • 0
1
vote
1
reply
1.4k
views
GSEABase getGmt() fails when more than 1 line contains duplicates
gseabase bug
updated 7.0 years ago by 25k • written 7.0 years ago by ▴ 10
9
votes
6
replies
4.9k
views
GSEA-like enrichment score calculation
GSEA enrichment analysis gseabase
updated 7.3 years ago by 48k • written 7.3 years ago by ▴ 20
0
votes
3
replies
3.4k
views
Creating custom geneset
gseabase
7.6 years ago pbachali ▴ 50
8
votes
16
replies
5.1k
views
Gene set enrichment analysis
gostat gsea gseabase topgo
updated 8.8 years ago by 1.1k • written 8.8 years ago by ▴ 10
0
votes
3
replies
1.6k
views
Running the GSEA algorithm
Microarray GeneSetEnrichment PGSEA GSEABase GSRI SeqGSEA Microarray GeneSetEnrichment GSRI
updated 9.5 years ago by 13k • written 9.5 years ago by ▴ 70
0
votes
5
replies
3.0k
views
Running the GSEA algorithm
Infrastructure PGSEA GSEABase SeqGSEA Infrastructure PGSEA GSEABase SeqGSEA
updated 9.5 years ago by ★ 1.3k • written 9.5 years ago by ▴ 660
0
votes
0
replies
964
views
correlation between two pathways' genes
Microarray Pathways GSEABase Microarray Pathways GSEABase
10.8 years ago Robert Castelo ★ 3.0k
0
votes
0
replies
1.1k
views
[Rocky] - R code for PGSEA package to identify differentially expressed genes
GO affy limma GLAD PGSEA GSEABase GO affy limma GLAD PGSEA GSEABase
11.7 years ago Valerie Obenchain ★ 6.8k
0
votes
4
replies
1.7k
views
conversion of geneset species ID
GSEABase GSEABase
updated 12.1 years ago by 25k • written 12.1 years ago by ▴ 930
0
votes
1
reply
1.1k
views
creating a UniprotIdentifier within GSEABase
Annotation Cancer hgu95av2 convert GSEABase Annotation Cancer hgu95av2 convert GSEABase
updated 12.2 years ago by 25k • written 12.2 years ago by ▴ 910
0
votes
0
replies
1.6k
views
GO with R and Bioconductor
Transcription Annotation GO GOstats biomaRt topGO GSEABase goseq Transcription Annotation
12.6 years ago Duke ▴ 210
0
votes
1
reply
1.5k
views
Help with GSEA package
hu6800 cdf genefilter multtest affy gcrma siggenes annaffy GSEABase hu6800 cdf multtest
updated 12.8 years ago by 25k • written 12.8 years ago by ▴ 20
0
votes
0
replies
979
views
creating GO and KEGG gene set collections for E. coli
GO GSEABase gage GO GSEABase gage
12.9 years ago Clémentine Dressaire ▴ 120
0
votes
1
reply
1.1k
views
GSEABase and Broad Inst Sets
Annotation hgu133plus2 hgu95av2 GSEABase Annotation hgu133plus2 hgu95av2 GSEABase
updated 13.2 years ago by 25k • written 13.2 years ago by ▴ 930
0
votes
3
replies
1.4k
views
Romer and symbols2indices query
probe limma GSEABase probe limma GSEABase
13.4 years ago Gordon Smyth 48k
0
votes
3
replies
1.2k
views
GSEAbase and limma
limma GSEABase limma GSEABase
updated 13.8 years ago by 48k • written 13.9 years ago by ▴ 840
0
votes
3
replies
1.2k
views
GeneSetCollection using EntrezID
Annotation Pathways GSEABase Annotation Pathways GSEABase
updated 13.9 years ago by 25k • written 13.9 years ago by ▴ 840
0
votes
3
replies
1.2k
views
question using GSEABase
GO GOstats topGO GSEABase GO GOstats topGO GSEABase
updated 14.4 years ago by 25k • written 14.4 years ago by ▴ 80
0
votes
1
reply
1.1k
views
GSEABase GOCollection wrong ontology
Annotation GO hgu133plus2 affy GSEABase Annotation GO hgu133plus2 affy GSEABase
updated 14.6 years ago by 25k • written 14.6 years ago by ▴ 330
0
votes
0
replies
1.1k
views
GSEA to discover co-regulated genes
Transcription Annotation Pathways Infrastructure probe convert GSEABase Transcription
14.7 years ago Paul Geeleher ★ 1.3k
2
votes
2
replies
1.2k
views
GSEA
GSEABase GSEABase
updated 14.9 years ago by 25k • written 14.9 years ago by ★ 1.0k
0
votes
1
reply
1.3k
views
GSEABase
GO illuminaHumanv2 lumi GSEABase GO illuminaHumanv2 lumi GSEABase
updated 14.9 years ago by 25k • written 14.9 years ago by ▴ 280
0
votes
2
replies
1.0k
views
using GSEAlm with GO geneSetCollections
GO affy goTools Category GSEABase GSEAlm GO affy goTools Category GSEABase GSEAlm
updated 14.9 years ago by ▴ 90 • written 14.9 years ago by ▴ 830
0
votes
0
replies
976
views
GSEA packages that depend on GSEABase?
GO GSEABase GO GSEABase
15.2 years ago Mark W Kimpel ▴ 830
0
votes
3
replies
2.1k
views
How to carry out Gene Set Enrichment Analysis(GSEA) on an ordered list of Entrezgene ids?
Proteomics hgu95av2 GSEABase Proteomics hgu95av2 GSEABase
15.2 years ago anna freni sterrantino ▴ 120
0
votes
0
replies
1.0k
views
How to carry out Gene Set Enrichment Analysis(GSEA) on an ordered list of Entrezgene ids?
Proteomics hgu95av2 GSEABase Proteomics hgu95av2 GSEABase
15.2 years ago Chanchal Kumar ▴ 130
0
votes
3
replies
1.5k
views
GeneSetCollection from GSEA
Proteomics GSEABase Proteomics GSEABase
updated 15.6 years ago by 25k • written 15.6 years ago by ▴ 70
0
votes
5
replies
1.9k
views
GSEA and Broad gene sets
Pathways GSEABase Pathways GSEABase
updated 15.8 years ago by ★ 1.2k • written 15.8 years ago by ▴ 30
45 results • Page 1 of 1
Recent ...
Replies
Comment: biomaRt code/getBM function no longer importing 'coding' sequence via seqType ar by James W. MacDonald 63k
I should also point out that you can find this out by yourself by going to [ensembl][1], clicking on the Biomart link, and then scrolling t…
Answer: biomaRt code/getBM function no longer importing 'coding' sequence via seqType ar by James W. MacDonald 63k
It's my understanding that the archived Biomart data are not complete, which is likely why you cannot get sequences. But you apparently jus…
Comment: ComBat_seq function in sva package does not return a matrix by Federico ▴ 10
Thanks for your help, problem solved :)
Answer: ComBat_seq function in sva package does not return a matrix by ATpoint ★ 3.4k
That happens if your `x` is a data.frame rather than a matrix. It is listed under the Q&A section in https://github.com/zhangyuqing/ComBat-…
Answer: error running exp2grn by Fabricio Almeida-Silva ▴ 40
Hi, Adriana. It seems like the gene IDs you specified in `Host13tfs$Protein.ID` do not match any gene IDs in the row names of your expr…
Votes
ComBat_seq function in sva package does not return a matrix
Answer: ComBat_seq function in sva package does not return a matrix
Answer: ComBat_seq function in sva package does not return a matrix
Answer: ComBat_seq function in sva package does not return a matrix
Answer: ComBat_seq function in sva package does not return a matrix
Awards • All
Teacher to ATpoint ★ 3.4k
Popular Question to Jitendra ▴ 10
Popular Question to boczniak767 ▴ 720
Popular Question to Gordon Smyth 48k
Popular Question to James W. MacDonald 63k
Locations • All
United States, 5 minutes ago
European Union, 16 minutes ago
Montenegro, 18 minutes ago
Belgium, 20 minutes ago
Italy, 45 minutes ago
Traffic: 720 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6