Showing : gsva • reset
5
votes
16
replies
2.3k
views
GSVA package scores are opposite on mac and windows
GSVA bug gsva bugs
updated 6.6 years ago by ★ 3.3k • written 6.6 years ago by ▴ 10
1
vote
12
replies
2.4k
views
GSVA (running group samples separately)
GSVA
updated 4.0 years ago by ★ 3.3k • written 4.0 years ago by ▴ 30
1
vote
11
replies
2.7k
views
Error in .local(expr, gset.idx.list, ...) : Please install the nnotation package hgu95a, but I can't install hgu95a
GSVA
updated 2.8 years ago by ▴ 10 • written 3.7 years ago by • 0
0
votes
11
replies
2.9k
views
GSVA: using Entrez ID's as identifiers
probe GSVA probe GSVA
updated 12.5 years ago by ★ 3.3k • written 12.5 years ago by ▴ 360
7
votes
11
replies
2.4k
views
Updating Gene Annotation in GeneSetCollection {GSEABase}
GSEABase annotation gsea gsva GeneSetCollection
updated 4.0 years ago by ★ 3.3k • written 4.0 years ago by ▴ 60
12
votes
10
replies
6.6k
views
Pre-processing RNA-seq data (normalization and transformation) for GSVA
gsva gene set variation analysis normalization transformation rna-seq
6.1 years ago • updated 5.3 years ago rached ▴ 60
2
votes
10
replies
3.7k
views
How to compare two or more GSVA outputs, when it is not possible to run GSVA at once
gsva
updated 3.9 years ago by ★ 3.3k • written 3.9 years ago by ▴ 20
3
votes
9
replies
8.8k
views
Does GSVA enrichment score comes negative?
GSVA
7.9 years ago • updated 7.0 years ago pbachali ▴ 50
0
votes
9
replies
2.9k
views
problem with using GSVA package
GSVA GSVA
updated 12.5 years ago by ★ 3.3k • written 12.5 years ago by ▴ 360
5
votes
9
replies
1.9k
views
GSVA perfomed on RSEM Expected Count data
GSVA RNA-Seq RSEM Expected_Count
21 months ago Yang Shi ▴ 10
0
votes
8
replies
5.7k
views
GSVA Error in .mapGeneSetsToFeatures(mapped.gset.idx.list, rownames(expr))
GSVA
updated 19 months ago by ★ 3.3k • written 3.2 years ago by • 0
0
votes
8
replies
4.3k
views
GSVA: problem with chip annotation
gsva
updated 9.5 years ago by ★ 3.3k • written 9.5 years ago by • 0
2
votes
7
replies
1.8k
views
Issue with GSVA using dgCMatrix
GSVA
updated 9 weeks ago by ▴ 10 • written 2.9 years ago by • 0
9
votes
7
replies
20k
views
Single Sample GSEA (ssGSEA) and dynamic range of expression
ssgsea gsva piano egsea
updated 5 months ago by ▴ 10 • written 6.8 years ago by ▴ 130
2
votes
6
replies
1.7k
views
How can I avoid artifacts in gene set/pathway scoring by UCell and similar algorithms?
escape UCell GSVA
updated 5 months ago by • 0 • written 14 months ago by • 0
1
vote
6
replies
495
views
GSVA on separate healthy and disease datasets
GSVA
updated 28 days ago by 65k • written 29 days ago by ▴ 60
1
vote
5
replies
1.5k
views
'combined score' calculation with singscore vs gsva
singscore GSVA
18 months ago rocanja ▴ 60
2
votes
5
replies
3.9k
views
GSVA error - incomplete instalation?
GSVA ExpressionSet
8.5 years ago • updated 8.4 years ago thrabe • 0
0
votes
5
replies
2.1k
views
GSVA error
GSVA GSVA
updated 11.3 years ago by ★ 3.3k • written 11.3 years ago by ★ 13k
0
votes
5
replies
2.5k
views
GSVA questions
cdf GSVA cdf GSVA
10.7 years ago Guest User ★ 13k
0
votes
5
replies
2.6k
views
parallel and GSVA
PROcess GSVA PROcess GSVA
updated 11.3 years ago by ★ 13k • written 11.3 years ago by ▴ 130
0
votes
5
replies
5.2k
views
Convert gene expression matrix to ExpressionSet
GSVA GSVA
updated 12.5 years ago by 25k • written 12.5 years ago by ▴ 360
2
votes
5
replies
3.2k
views
Problem encountered when running GSVA for RNAseq
gsva rnaseq
updated 9.5 years ago by ★ 3.3k • written 9.5 years ago by • 0
0
votes
5
replies
3.3k
views
nsFilter error in genefilter
GSVA GSVA
updated 11.1 years ago by ★ 3.3k • written 11.1 years ago by ★ 13k
5
votes
4
replies
3.1k
views
Differential expression on GSVA scores using LIMMA
limma gsva
updated 5.1 years ago by ★ 3.3k • written 5.1 years ago by ▴ 60
2
votes
4
replies
2.4k
views
Are singscore scores comparable between gene sets?
singscore GSVA GSEA subtypes geneset
updated 3.3 years ago by • 0 • written 5.2 years ago by ▴ 40
1
vote
4
replies
2.0k
views
Meaning of zero for ssGESA value calculated by GSVA package
gsva
updated 5.8 years ago by ★ 3.3k • written 5.8 years ago by • 0
3
votes
4
replies
2.1k
views
Why Negative value from GSVA
GSVA RNASeq edgeR
22 months ago Yang Shi ▴ 10
3
votes
4
replies
209
views
Method to find pathways different between 2 groups
fgsea GSVA CAMERA
updated 1 day ago by 50k • written 3 days ago by • 0
2
votes
4
replies
1.4k
views
Failed to install Biobase
GSVA Biobase
updated 13 months ago by 65k • written 13 months ago by • 0
6
votes
4
replies
1.8k
views
Discrepancy in GSVA for Nanostring when using normalized counts vs rlog as input
GSVA
3.2 years ago hanyin.wang88 ▴ 10
1
vote
4
replies
5.0k
views
GSVA on RNAseq data
gsva rnaseq
updated 5.1 years ago by ★ 3.3k • written 5.1 years ago by ▴ 60
0
votes
4
replies
1.3k
views
The selection of bandwidth of GSVA
GSVA gsva
updated 6.2 years ago by ★ 3.3k • written 6.2 years ago by • 0
0
votes
3
replies
1.5k
views
about running gsva on mac
PROcess GSVA PROcess GSVA
updated 10.8 years ago by ▴ 200 • written 10.8 years ago by ▴ 230
0
votes
3
replies
2.7k
views
[GSVA] Segfault with GSVA
RNASeq Microarray Annotation gcrma convert GSVA RNASeq Microarray Annotation gcrma GSVA
updated 11.3 years ago by ▴ 230 • written 11.3 years ago by ★ 3.3k
0
votes
3
replies
1.5k
views
GSVA (1.18.0) segfaulting on small dataset
gsva segfault
updated 8.0 years ago by ★ 3.3k • written 8.0 years ago by ▴ 120
8
votes
3
replies
2.5k
views
GSVA indifferent to 'abs.ranking'
GSVA gsva abs.ranking
updated 7.0 years ago by ★ 3.3k • written 7.0 years ago by ▴ 130
0
votes
3
replies
1.4k
views
GSVA on gene sets with 2 genes
GSVA gene sets RNA-seq
updated 3.5 years ago by ★ 3.3k • written 3.6 years ago by ▴ 70
2
votes
3
replies
1.8k
views
Selecting or not selecting samples before running GSVA
GSVA
updated 3.4 years ago by ★ 3.3k • written 3.4 years ago by ▴ 20
0
votes
3
replies
1.9k
views
Should 0 values for gene counts be removed prior to ssGSEA/GSVA analysis?
GSEA GSVA
updated 18 months ago by ▴ 60 • written 22 months ago by • 0
1
vote
3
replies
5.5k
views
GSVA and ssGSEA output differences
enrichment GSVA enrichplot ssGSEA
updated 2.1 years ago by ★ 3.3k • written 2.1 years ago by • 0
0
votes
3
replies
1.1k
views
GSVA results interpretation
GSVA
updated 16 months ago by ★ 3.3k • written 16 months ago by • 0
0
votes
3
replies
754
views
GSVA: Error loading interactive web app
igsva GSVA
updated 14 months ago by ★ 3.3k • written 15 months ago by ▴ 40
4
votes
2
replies
2.6k
views
GSVA: questions about the bootstrap p-value
gsva
updated 6.9 years ago by ★ 3.3k • written 6.9 years ago by ▴ 30
0
votes
2
replies
795
views
GSVA with and without absolute scaling method
GSVA
13 months ago arashdeep singh • 0
1
vote
2
replies
1.1k
views
Can GSVA be applied in several sample type and each type only have two replicates ?
GSVA
2.7 years ago • updated 23 months ago Guandong Shang ▴ 40
3
votes
2
replies
1.4k
views
Crash GSVA 1.24.0 with bootstrapping
GSVA bug
updated 7.0 years ago by ★ 3.3k • written 7.0 years ago by ▴ 20
1
vote
2
replies
2.4k
views
GSVA for single sample
gsea gsva ssgsea
6.2 years ago jaison75 ▴ 20
4
votes
2
replies
1.2k
views
Gene set analysis: GSVA, Z-Score, and fold-changes
GSVA RNASeq limma
updated 10 months ago by 50k • written 10 months ago by ▴ 10
2
votes
2
replies
1.8k
views
Input genes for GSVA
gsva gene expression matrix
updated 6.1 years ago by ★ 3.3k • written 6.1 years ago by ▴ 70
50 results • Page 1 of 1
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Replies
Comment: EGSEA usage with microarray data (with vooma)? by Chris • 0
Hi Pekka, I also try EGSEA with microarray data. However, I got this error. Would you please have a suggestion? gsa = egsea.ma(numeric…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k
> Any suggestions for methylation data segmentation? I think the same segmentation can be used.
Comment: deseq2 results by swbarnes2 ★ 1.3k
Cross-posted https://www.biostars.org/p/9594331/#9594458
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by Mike Smith ★ 6.5k
The other answers here are all good and demonstrate the issue with floating point comparisons nicely. I'd like to add that your particular…
Comment: More regions in union when increasing DBA$config$mergeOverlap by Ian D. ▴ 70
Nudging my question. I could do with confirmation before proceeding with my current projects. Thank you.
Votes
A: Volcanoplot with limma - RAW P-values or Adj.P-Values
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: minfi latest update for EPIC V2 chip
A: Error in DESeqDataSet : some values in assay are not integers
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