Showing : GSEABase • reset
2
votes
2
replies
640
views
fgsea stuck in an infinite loop in the middle of the run
GSEABase fgsea msigdb GeneSetEnrichment
10 weeks ago • updated 9 weeks ago Assa Yeroslaviz ★ 1.5k
0
votes
2
replies
344
views
Problem finding certain variables when importing a public database GSE73103
GSEABase GenomicDistributionsData
6 months ago Yveto • 0
0
votes
1
reply
512
views
"Counts" in enrichGO
GSEABase
updated 9 months ago by ▴ 10 • written 9 months ago by • 0
1
vote
1
reply
1.7k
views
Cleaning GeneSets from GSEA
msigdb GSEABase GSVA
updated 2.6 years ago by ★ 3.4k • written 2.6 years ago by • 0
3
votes
1
reply
1.2k
views
GSEABase::getBroadSets returns error with the latest MSigDB version
GSEABase
updated 3.9 years ago by 25k • written 3.9 years ago by ▴ 60
7
votes
11
replies
3.0k
views
Updating Gene Annotation in GeneSetCollection {GSEABase}
GSEABase annotation gsea gsva GeneSetCollection
updated 4.5 years ago by ★ 3.4k • written 4.5 years ago by ▴ 60
3
votes
4
replies
2.1k
views
GSEABase - Map gene/transcript IDs to GOslims?
gseabase go gene ontology goslim
4.7 years ago • updated 20 months ago samwhite ▴ 20
7
votes
9
replies
3.9k
views
GSEABase - View/extract GO terms mapped to each GOslim
go GSEABase GOslim gene ontology
4.7 years ago • updated 19 months ago samwhite ▴ 20
0
votes
3
replies
1.9k
views
GO enrichment for non-model plant species
clusterProfiler GSEABase GMTfiles
5.3 years ago sandeep.amberkar18 ▴ 10
2
votes
2
replies
1.8k
views
GSEABase: how to extract shortDescription from GeneSetCollection object
GSEABase
updated 5.6 years ago by 25k • written 5.6 years ago by ★ 4.1k
1
vote
1
reply
2.2k
views
Tutorial: Update gene symbols in GeneSetCollection
gseabase msigdb genesetcollection Tutorial
written 6.4 years ago by ▴ 170
0
votes
3
replies
2.0k
views
Issues in generating workable rank file for GSEA
pre-ranked GSEA DESeq2 gseabase GSEA
updated 6.4 years ago by 42k • written 6.4 years ago by • 0
3
votes
3
replies
1.8k
views
convert Gene collection to gene list for camera function
limma GSEABase
updated 6.7 years ago by 67k • written 6.7 years ago by • 0
2
votes
2
replies
1.6k
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 6.9 years ago by ★ 3.4k • written 6.9 years ago by ▴ 60
1
vote
2
replies
2.4k
views
RESOLVED- GSEAbase: problem with GOCollection (getAnnMap: package GO not availale)
gene ontology gseabase
7.2 years ago maeva.mollion • 0
0
votes
0
replies
1.2k
views
Does GSEABase support organismDb objects?
GSEABase
7.3 years ago sandmann.t ▴ 70
0
votes
2
replies
2.0k
views
Problem with GeneSetCollection after updating R devel packages.
bug gseabase example
7.8 years ago jcrodriguez ▴ 20
2
votes
2
replies
1.4k
views
Using GeneSetCollection objects of GSEABase in piano package
piano gseabase
7.8 years ago Lluís Revilla Sancho ▴ 760
2
votes
3
replies
1.4k
views
Probable bug in GSEABase package.
software error bug gseabase
7.8 years ago jcrodriguez ▴ 20
1
vote
2
replies
1.7k
views
Question on GeneSetCollection in GSEABase
gseabase geneset
updated 7.8 years ago by 25k • written 7.8 years ago by • 0
1
vote
1
reply
1.9k
views
GSEABase getGmt() fails when more than 1 line contains duplicates
gseabase bug
updated 8.2 years ago by 25k • written 8.2 years ago by ▴ 10
9
votes
6
replies
6.2k
views
GSEA-like enrichment score calculation
GSEA enrichment analysis gseabase
updated 8.4 years ago by 51k • written 8.4 years ago by ▴ 20
0
votes
3
replies
4.3k
views
Creating custom geneset
gseabase
8.8 years ago • updated 8.7 years ago pbachali ▴ 50
8
votes
16
replies
6.1k
views
Gene set enrichment analysis
gostat gsea gseabase topgo
updated 10.0 years ago by ★ 1.1k • written 10.0 years ago by ▴ 10
0
votes
3
replies
2.0k
views
Running the GSEA algorithm
Microarray GeneSetEnrichment PGSEA GSEABase GSRI SeqGSEA Microarray GeneSetEnrichment GSRI
updated 10.6 years ago by ★ 13k • written 10.6 years ago by ▴ 70
0
votes
5
replies
3.6k
views
Running the GSEA algorithm
Infrastructure PGSEA GSEABase SeqGSEA Infrastructure PGSEA GSEABase SeqGSEA
updated 10.6 years ago by ★ 1.3k • written 10.6 years ago by ▴ 660
0
votes
0
replies
1.2k
views
correlation between two pathways' genes
Microarray Pathways GSEABase Microarray Pathways GSEABase
11.9 years ago Robert Castelo ★ 3.4k
0
votes
0
replies
1.3k
views
[Rocky] - R code for PGSEA package to identify differentially expressed genes
GO affy limma GLAD PGSEA GSEABase GO affy limma GLAD PGSEA GSEABase
12.8 years ago Valerie Obenchain ★ 6.8k
0
votes
4
replies
2.3k
views
conversion of geneset species ID
GSEABase GSEABase
updated 13.2 years ago by 25k • written 13.2 years ago by ▴ 930
0
votes
1
reply
1.4k
views
creating a UniprotIdentifier within GSEABase
Annotation Cancer hgu95av2 convert GSEABase Annotation Cancer hgu95av2 convert GSEABase
updated 13.3 years ago by 25k • written 13.3 years ago by ▴ 910
0
votes
0
replies
1.9k
views
GO with R and Bioconductor
Transcription Annotation GO GOstats biomaRt topGO GSEABase goseq Transcription Annotation
13.7 years ago Duke ▴ 210
0
votes
1
reply
1.8k
views
Help with GSEA package
hu6800 cdf genefilter multtest affy gcrma siggenes annaffy GSEABase hu6800 cdf multtest
updated 14.0 years ago by 25k • written 14.0 years ago by ▴ 20
0
votes
0
replies
1.3k
views
creating GO and KEGG gene set collections for E. coli
GO GSEABase gage GO GSEABase gage
14.0 years ago Clémentine Dressaire ▴ 120
0
votes
1
reply
1.4k
views
GSEABase and Broad Inst Sets
Annotation hgu133plus2 hgu95av2 GSEABase Annotation hgu133plus2 hgu95av2 GSEABase
updated 14.4 years ago by 25k • written 14.4 years ago by ▴ 930
0
votes
3
replies
1.9k
views
Romer and symbols2indices query
probe limma GSEABase probe limma GSEABase
14.5 years ago Gordon Smyth 51k
0
votes
3
replies
1.6k
views
GSEAbase and limma
limma GSEABase limma GSEABase
updated 15.0 years ago by 51k • written 15.0 years ago by ▴ 840
0
votes
3
replies
1.7k
views
GeneSetCollection using EntrezID
Annotation Pathways GSEABase Annotation Pathways GSEABase
updated 15.0 years ago by 25k • written 15.0 years ago by ▴ 840
0
votes
3
replies
1.5k
views
question using GSEABase
GO GOstats topGO GSEABase GO GOstats topGO GSEABase
updated 15.5 years ago by 25k • written 15.5 years ago by ▴ 80
0
votes
1
reply
1.5k
views
GSEABase GOCollection wrong ontology
Annotation GO hgu133plus2 affy GSEABase Annotation GO hgu133plus2 affy GSEABase
updated 15.7 years ago by 25k • written 15.7 years ago by ▴ 330
0
votes
0
replies
1.5k
views
GSEA to discover co-regulated genes
Transcription Annotation Pathways Infrastructure probe convert GSEABase Transcription
15.8 years ago Paul Geeleher ★ 1.3k
2
votes
2
replies
1.6k
views
GSEA
GSEABase GSEABase
updated 16.0 years ago by 25k • written 16.0 years ago by ★ 1.0k
0
votes
1
reply
1.6k
views
GSEABase
GO illuminaHumanv2 lumi GSEABase GO illuminaHumanv2 lumi GSEABase
updated 16.0 years ago by 25k • written 16.0 years ago by ▴ 280
0
votes
2
replies
1.4k
views
using GSEAlm with GO geneSetCollections
GO affy goTools Category GSEABase GSEAlm GO affy goTools Category GSEABase GSEAlm
updated 16.0 years ago by ▴ 90 • written 16.0 years ago by ▴ 830
0
votes
0
replies
1.3k
views
GSEA packages that depend on GSEABase?
GO GSEABase GO GSEABase
16.3 years ago Mark W Kimpel ▴ 830
0
votes
3
replies
2.6k
views
How to carry out Gene Set Enrichment Analysis(GSEA) on an ordered list of Entrezgene ids?
Proteomics hgu95av2 GSEABase Proteomics hgu95av2 GSEABase
16.3 years ago anna freni sterrantino ▴ 120
0
votes
0
replies
1.3k
views
How to carry out Gene Set Enrichment Analysis(GSEA) on an ordered list of Entrezgene ids?
Proteomics hgu95av2 GSEABase Proteomics hgu95av2 GSEABase
16.3 years ago Chanchal Kumar ▴ 130
0
votes
3
replies
1.9k
views
GeneSetCollection from GSEA
Proteomics GSEABase Proteomics GSEABase
updated 16.7 years ago by 25k • written 16.7 years ago by ▴ 70
0
votes
5
replies
2.4k
views
GSEA and Broad gene sets
Pathways GSEABase Pathways GSEABase
updated 17.0 years ago by ★ 1.2k • written 17.0 years ago by ▴ 30
48 results • Page 1 of 1
Recent ...
Replies
Comment: Limma- Print-tip loess normalisation-printer layout information does not match M by dseauer • 0
Thank you so much for all of your help! I really appreciate it!
Comment: Limma- Print-tip loess normalisation-printer layout information does not match M by Gordon Smyth 51k
Thanks for extra info, but be careful that the Bioconductor support site requires code to be an markdown format. Copying code with prompts …
Comment: Limma- Print-tip loess normalisation-printer layout information does not match M by dseauer • 0
Thank you so much for your reply! I am sincerely sorry- of course I do not have multiple GAL files- just one- I meant gpr files! I am so so…
Comment: Is it possible to parallelise saveHDF5SummarizedExperiment by Stefano Mangiola ▴ 20
Thansk Herve', I will try. For reference this is the parallelization implementation of zellkonverter, to save anndata from SCE https://gi…
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore by Jason • 0
Any update on the resolution to this? I'm having the same issue with another species.
Votes
A: Recommendations for combining multiple 10x runs into one SingleCellExperiment
Answer: Handling biological replicates in DESeq2
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore
biomaRt rnorvegicus_gene_ensembl not available anymore
A: Does edgeR need to specify reference group?
Awards • All
Commentator to James W. MacDonald 67k
Popular Question to Stefano Mangiola ▴ 20
Popular Question to Shian Su ▴ 40
Popular Question to altintas.ali • 0
Popular Question to eve.olszanowski • 0
Locations • All
France, 12 minutes ago
United States, 18 minutes ago
United States, 18 minutes ago
Australia, 19 minutes ago
Australia, 29 minutes ago
Traffic: 583 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