Showing : gsva • reset
0
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GSVA: problem with chip annotation
gsva
updated 10.2 years ago by ★ 3.4k • written 10.2 years ago by • 0
2
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5
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3.7k
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Problem encountered when running GSVA for RNAseq
gsva rnaseq
updated 10.2 years ago by ★ 3.4k • written 10.2 years ago by • 0
3
votes
9
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10k
views
Does GSVA enrichment score comes negative?
GSVA
8.6 years ago • updated 7.7 years ago pbachali ▴ 50
1
vote
11
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3.1k
views
Error in .local(expr, gset.idx.list, ...) : Please install the nnotation package hgu95a, but I can't install hgu95a
GSVA
updated 3.5 years ago by ▴ 10 • written 4.4 years ago by • 0
0
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9
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3.7k
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problem with using GSVA package
GSVA GSVA
updated 13.2 years ago by ★ 3.4k • written 13.2 years ago by ▴ 360
1
vote
6
replies
976
views
GSVA on separate healthy and disease datasets
GSVA
updated 9 months ago by 67k • written 9 months ago by ▴ 60
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5
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2.8k
views
GSVA questions
cdf GSVA cdf GSVA
11.4 years ago Guest User ★ 13k
4
votes
2
replies
2.2k
views
Gene set analysis: GSVA, Z-Score, and fold-changes
GSVA RNASeq limma
updated 18 months ago by 52k • written 18 months ago by ▴ 10
4
votes
5
replies
1.2k
views
Method to find pathways different between 2 groups
fgsea GSVA CAMERA
8 months ago Chris ▴ 20
5
votes
16
replies
2.8k
views
GSVA package scores are opposite on mac and windows
GSVA bug gsva bugs
updated 7.3 years ago by ★ 3.4k • written 7.3 years ago by ▴ 10
1
vote
2
replies
2.8k
views
GSVA for single sample
gsea gsva ssgsea
6.9 years ago jaison75 ▴ 20
0
votes
2
replies
1.9k
views
Problem in running GSVA
GSVA getting error in gsva function
10.0 years ago sathyabaarathi • 0
0
votes
11
replies
3.2k
views
GSVA: using Entrez ID's as identifiers
probe GSVA probe GSVA
updated 13.2 years ago by ★ 3.4k • written 13.2 years ago by ▴ 360
0
votes
5
replies
2.9k
views
parallel and GSVA
PROcess GSVA PROcess GSVA
updated 12.0 years ago by ★ 13k • written 12.0 years ago by ▴ 130
2
votes
5
replies
5.0k
views
GSVA error - incomplete instalation?
GSVA ExpressionSet
9.2 years ago • updated 9.1 years ago thrabe • 0
0
votes
5
replies
3.6k
views
nsFilter error in genefilter
GSVA GSVA
updated 11.8 years ago by ★ 3.4k • written 11.8 years ago by ★ 13k
0
votes
3
replies
1.7k
views
about running gsva on mac
PROcess GSVA PROcess GSVA
updated 11.5 years ago by ▴ 200 • written 11.5 years ago by ▴ 230
1
vote
4
replies
997
views
GSVA ssGSEA vs. Broad implementation of ssGSEA
enrichment GSVA ssGSEA
updated 11 weeks ago by ▴ 10 • written 3 months ago by ▴ 10
1
vote
1
reply
1.7k
views
GSVA with NanoString nCounter data
GSVA Nanostring
6.5 years ago • updated 5.8 years ago SB • 0
1
vote
4
replies
2.3k
views
Meaning of zero for ssGESA value calculated by GSVA package
gsva
updated 6.5 years ago by ★ 3.4k • written 6.5 years ago by • 0
2
votes
1
reply
1.3k
views
GSVA tutorial brainTxDb oligodendrocytic_dn neuronal_dn are same genesets
GSVA tutorial
updated 6.3 years ago by ★ 3.4k • written 6.4 years ago by ▴ 10
1
vote
1
reply
1.5k
views
PLAGE method fails in GSVA if an overlap between gene sets and genes in expressions is less than two
gsva plage differential expression gene set enrichment
6.0 years ago krassowski.michal ▴ 40
1
vote
3
replies
8.0k
views
GSVA and ssGSEA output differences
enrichment GSVA enrichplot ssGSEA
updated 2.8 years ago by ★ 3.4k • written 2.8 years ago by • 0
0
votes
5
replies
5.6k
views
Convert gene expression matrix to ExpressionSet
GSVA GSVA
updated 13.2 years ago by 25k • written 13.2 years ago by ▴ 360
0
votes
3
replies
3.0k
views
[GSVA] Segfault with GSVA
RNASeq Microarray Annotation gcrma convert GSVA RNASeq Microarray Annotation gcrma GSVA
updated 12.0 years ago by ▴ 230 • written 12.0 years ago by ★ 3.4k
0
votes
5
replies
2.6k
views
GSVA error
GSVA GSVA
updated 12.0 years ago by ★ 3.4k • written 12.0 years ago by ★ 13k
0
votes
1
reply
1.6k
views
GSVA
Microarray Pathways GSVA Microarray Pathways GSVA
11.9 years ago Robert Castelo ★ 3.4k
0
votes
2
replies
2.1k
views
Error when running Gene Set Variant Analysis (GSVA)
GSVA GSVA
updated 11.6 years ago by ★ 3.4k • written 11.6 years ago by ▴ 50
0
votes
1
reply
1.9k
views
nsFilter error in genefilter
GO hgu133plus2 cdf GSVA AnnotationForge GO hgu133plus2 cdf GSVA AnnotationForge
updated 11.5 years ago by 67k • written 11.5 years ago by ▴ 90
2
votes
2
replies
5.0k
views
Error in running gsva function from GSVA package
gsva
updated 9.2 years ago by ★ 3.4k • written 9.2 years ago by ▴ 10
2
votes
1
reply
3.7k
views
Dealing with the output of ssGSEA method from GSVA package
gsva ssgsea
9.2 years ago Momeneh Foroutan ▴ 10
0
votes
3
replies
1.7k
views
GSVA (1.18.0) segfaulting on small dataset
gsva segfault
updated 8.7 years ago by ★ 3.4k • written 8.7 years ago by ▴ 120
3
votes
2
replies
1.6k
views
Crash GSVA 1.24.0 with bootstrapping
GSVA bug
updated 7.7 years ago by ★ 3.4k • written 7.7 years ago by ▴ 20
8
votes
3
replies
2.9k
views
GSVA indifferent to 'abs.ranking'
GSVA gsva abs.ranking
updated 7.7 years ago by ★ 3.4k • written 7.7 years ago by ▴ 130
4
votes
2
replies
3.0k
views
GSVA: questions about the bootstrap p-value
gsva
updated 7.6 years ago by ★ 3.4k • written 7.6 years ago by ▴ 30
9
votes
7
replies
21k
views
Single Sample GSEA (ssGSEA) and dynamic range of expression
ssgsea gsva piano egsea
updated 13 months ago by ▴ 10 • written 7.5 years ago by ▴ 130
0
votes
1
reply
1.7k
views
Set rnaseq locial flag during GSVA
gsva rnaseq tpm
updated 7.4 years ago by ★ 3.4k • written 7.4 years ago by • 0
0
votes
4
replies
1.5k
views
The selection of bandwidth of GSVA
GSVA gsva
updated 6.9 years ago by ★ 3.4k • written 6.9 years ago by • 0
12
votes
10
replies
7.9k
views
Pre-processing RNA-seq data (normalization and transformation) for GSVA
gsva gene set variation analysis normalization transformation rna-seq
6.8 years ago • updated 6.0 years ago rached ▴ 60
2
votes
2
replies
2.2k
views
Input genes for GSVA
gsva gene expression matrix
updated 6.8 years ago by ★ 3.4k • written 6.8 years ago by ▴ 70
1
vote
1
reply
497
views
GSVA 1.52.2 (new API) nb of workers?
parallelize workers GSVA
updated 7 months ago by ★ 1.0k • written 7 months ago by • 0
2
votes
2
replies
2.0k
views
How to run GSVA with partially NA genes
GSVA
2.7 years ago • updated 2.6 years ago blakebowen • 0
3
votes
4
replies
2.8k
views
Why Negative value from GSVA
GSVA RNASeq edgeR
2.5 years ago Yang Shi ▴ 10
0
votes
3
replies
1.9k
views
GSVA results interpretation
GSVA
updated 2.0 years ago by ★ 3.4k • written 2.0 years ago by • 0
0
votes
1
reply
1.2k
views
Job: Research software engineer at UPF Barcelona
JobPosting Devel GSVA Software
written 2.1 years ago by ★ 3.4k
0
votes
3
replies
1.0k
views
GSVA function
DESeq2 GSVA ssGSEA
updated 7 months ago by ★ 3.4k • written 7 months ago by • 0
2
votes
6
replies
2.5k
views
How can I avoid artifacts in gene set/pathway scoring by UCell and similar algorithms?
escape UCell GSVA
updated 13 months ago by • 0 • written 23 months ago by • 0
0
votes
3
replies
1.1k
views
GSVA: Error loading interactive web app
igsva GSVA
updated 23 months ago by ★ 3.4k • written 23 months ago by ▴ 40
0
votes
1
reply
544
views
Should the expression data be filtered for `Protein-Coding Genes` before Running ssGSEA?
ssgsea GSVA gsea
updated 5 months ago by ★ 1.0k • written 5 months ago by • 0
1
vote
4
replies
1.5k
views
Should I perform batch correction of normalized RNA-seq counts prior to GSVA?
GSVA GSVAdata RNAseq
6 months ago • updated 5 months ago Lucy ▴ 60
50 results • Page 1 of 1
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Comment: Why did PCA plots look exactly the same after adjusting for batch covariate in D by Michael Love 43k
hi, for questions about what statistical analysis approach to use, I recommend you work with a local statistician or someone familiar with …
Comment: Problems with oarfish + tximport + swish by Michael Love 43k
I'm not certain that this will work with Oarfish, the documentation only mentions Salmon and piscem. I'd use tximport for now.
Answer: Problems with oarfish + tximport + swish by Michael Love 43k
> This is fine Did tximeta() print that a matching transcriptome was found?
Answer: DESeq2 Heatmap by swbarnes2 ★ 1.4k
> However, I've been asked why the first column (vehicle/control) isn't > entirely zero on the log fold change (logFC) expression scale. …
Comment: Biomart and ensembl not working? by James W. MacDonald 67k
``` > library(biomaRt) > mart <- useEnsembl("ensembl","hsapiens_gene_ensembl") Ensembl site unresponsive, trying useast mirror > mart Objec…
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Answer: Limma Interaction Effect with Covariates
Comment: DESeq2 for single cell pseudobulk processing
C: Limma: how to get same output as topTable but for all the genes ?
A: Processing agilent data by limma
A: Linear regression in DESeq2
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