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
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
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
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
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
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
3
votes
9
replies
8.8k
views
Does GSVA enrichment score comes negative?
GSVA
7.8 years ago • updated 7.0 years ago pbachali ▴ 50
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
4.2k
views
GSVA: problem with chip annotation
gsva
updated 9.5 years ago by ★ 3.3k • written 9.5 years ago by • 0
0
votes
8
replies
5.6k
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
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
7
replies
1.8k
views
Issue with GSVA using dgCMatrix
GSVA
updated 8 weeks ago by ▴ 10 • written 2.9 years ago by • 0
2
votes
6
replies
1.6k
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
481
views
GSVA on separate healthy and disease datasets
GSVA
updated 22 days ago by 65k • written 23 days ago by ▴ 60
1
vote
5
replies
1.5k
views
'combined score' calculation with singscore vs gsva
singscore GSVA
18 months ago • updated 17 months ago rocanja ▴ 60
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
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
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
3.3k
views
nsFilter error in genefilter
GSVA GSVA
updated 11.0 years ago by ★ 3.3k • written 11.0 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
2.1k
views
GSVA error
GSVA GSVA
updated 11.2 years ago by ★ 3.3k • written 11.2 years ago by ★ 13k
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
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
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
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 5.1 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
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
3
votes
4
replies
2.1k
views
Why Negative value from GSVA
GSVA RNASeq edgeR
22 months ago Yang Shi ▴ 10
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
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
2.4k
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 3.5 years ago by ▴ 70
2
votes
3
replies
1.8k
views
Selecting or not selecting samples before running GSVA
GSVA
updated 3.3 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
5.4k
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 15 months ago by ★ 3.3k • written 15 months ago by • 0
0
votes
3
replies
742
views
GSVA: Error loading interactive web app
igsva GSVA
updated 14 months ago by ★ 3.3k • written 14 months ago by ▴ 40
1
vote
2
replies
486
views
GSVA error
GSVA
18 days ago • updated 17 days ago Alex • 0
2
votes
2
replies
1.8k
views
Using GSVA All the pathway score are same
GSVA scRNA-seq data
updated 3.9 years ago by ★ 3.3k • written 3.9 years ago by • 0
0
votes
2
replies
786
views
GSVA with and without absolute scaling method
GSVA
12 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
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
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
1.4k
views
Method to be used in gsva() function
GSVA
7.8 years ago pbachali ▴ 50
4
votes
2
replies
1.2k
views
Gene set analysis: GSVA, Z-Score, and fold-changes
GSVA RNASeq limma
updated 9 months ago by 50k • written 10 months ago by ▴ 10
50 results • Page 1 of 1
Recent ...
Replies
Comment: Deseq2 and Normalization of RNA sequencing data by kcarey • 0
Noise in terms of expression...to make sure that the information reported is not due to artifacts and actually expression. When I had FPKM …
Answer: NEED FOR NESSASORY HELP by Gordon Smyth 50k
Is this quesion related to your earlier question? https://support.bioconductor.org/p/9157127/ If you've already done an edgeR analysis, yo…
Answer: Gene-by-sample covariates in limma by Gordon Smyth 50k
Your first method would be valid if, instead of taking ratios, you instead used the differences between the log-transformed 13C and 12C int…
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p- by Gordon Smyth 50k
You have discovered something that I have pointed out many times on this forum. fgsea does not implement the classic GSEA method published …
Comment: Once again a "Model matrix not full rank" by James W. MacDonald 65k
In that case both time and treatment are identical things, so choose one and go with it.
Votes
Bioconductor 3.19 is Released!
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
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