Showing : GSVA • reset
0
votes
11
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757
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Error in .local(expr, gset.idx.list, ...) : Please install the nnotation package hgu95a, but I can't install hgu95a
GSVA
updated 10 days ago by • 0 • written 11 months ago by • 0
2
votes
2
replies
123
views
Questions regard to GSVA and Limma
limma GSVA
29 days ago • updated 27 days ago Chenxi • 0
2
votes
2
replies
77
views
Turn of GSVA filtering for method ssGSEA
GSVA
28 days ago k.vitting.seerup ▴ 100
1
vote
2
replies
163
views
Issue with GSVA using dgCMatrix
GSVA
6 weeks ago • updated 5 weeks ago resa • 0
0
votes
1
reply
122
views
GSVA Problem
GSVA
updated 10 weeks ago by ★ 2.7k • written 10 weeks ago by • 0
6
votes
4
replies
302
views
Discrepancy in GSVA for Nanostring when using normalized counts vs rlog as input
GSVA
5 months ago hanyin.wang88 ▴ 10
0
votes
4
replies
343
views
GSVA Error in .mapGeneSetsToFeatures(mapped.gset.idx.list, rownames(expr))
GSVA
5 months ago Siyuan • 0
0
votes
3
replies
307
views
Selecting or not selecting samples before running GSVA
GSVA
updated 7 months ago by ★ 2.7k • written 7 months ago by • 0
0
votes
3
replies
289
views
GSVA on gene sets with 2 genes
GSVA gene sets RNA-seq
updated 9 months ago by ★ 2.7k • written 9 months ago by ▴ 60
0
votes
1
reply
162
views
Extract GSVA gene rank matrix
gsva
updated 11 months ago by ★ 2.7k • written 11 months ago by • 0
2
votes
1
reply
294
views
pre-filtering gene sets for GSVA/ssGSEA
gsea ssgsea gsva pathways
updated 12 months ago by ★ 2.7k • written 12 months ago by ▴ 40
2
votes
2
replies
260
views
Using GSVA All the pathway score are same
GSVA scRNA-seq data
updated 13 months ago by ★ 2.7k • written 13 months ago by • 0
0
votes
10
replies
653
views
How to compare two or more GSVA outputs, when it is not possible to run GSVA at once
gsva
updated 13 months ago by ★ 2.7k • written 13 months ago by • 0
0
votes
1
reply
262
views
GSVA on integrated/batch corrected scRNAseq data
GSVA Job
updated 14 months ago by ★ 2.7k • written 14 months ago by • 0
1
vote
12
replies
531
views
GSVA (running group samples separately)
GSVA
updated 14 months ago by ★ 2.7k • written 14 months ago by ▴ 30
7
votes
11
replies
512
views
Updating Gene Annotation in GeneSetCollection {GSEABase}
GSEABase annotation gsea gsva GeneSetCollection
updated 15 months ago by ★ 2.7k • written 15 months ago by ▴ 60
0
votes
1
reply
217
views
Method and kcdf arguments in gsva package
GSVA
updated 15 months ago by ★ 2.7k • written 15 months ago by ▴ 10
7
votes
6
replies
13k
views
Single Sample GSEA (ssGSEA) and dynamic range of expression
ssgsea gsva piano egsea
updated 4 months ago by ▴ 10 • written 4.0 years ago by ▴ 110
1
vote
4
replies
1.3k
views
GSVA on RNAseq data
gsva rnaseq
updated 2.3 years ago by ★ 2.7k • written 2.3 years ago by ▴ 60
0
votes
1
reply
309
views
GSVA lots of positive values, is this expected behavior?
gsva
updated 2.3 years ago by ★ 2.7k • written 2.3 years ago by • 0
1
vote
1
reply
619
views
GSVA with NanoString nCounter data
GSVA Nanostring
3.0 years ago • updated 2.3 years ago SB • 0
5
votes
4
replies
804
views
Differential expression on GSVA scores using LIMMA
limma gsva
updated 2.3 years ago by ★ 2.7k • written 2.3 years ago by ▴ 60
2
votes
4
replies
648
views
Are singscore scores comparable between gene sets?
singscore GSVA GSEA subtypes geneset
updated 6 months ago by • 0 • written 2.4 years ago by ▴ 30
10
votes
10
replies
2.0k
views
Pre-processing RNA-seq data (normalization and transformation) for GSVA
gsva gene set variation analysis normalization transformation rna-seq
3.3 years ago • updated 2.5 years ago rached ▴ 50
0
votes
0
replies
445
views
Tumor subtype classification when genes of gene set are missing from samples - GSVA approach
GSVA geneset RNASeq TCGA subtypes
2.6 years ago Pietro ▴ 30
1
vote
1
reply
414
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
2.6 years ago krassowski.michal ▴ 10
2
votes
1
reply
470
views
GSVA tutorial brainTxDb oligodendrocytic_dn neuronal_dn are same genesets
GSVA tutorial
updated 2.9 years ago by ★ 2.7k • written 2.9 years ago by • 0
1
vote
4
replies
691
views
Meaning of zero for ssGESA value calculated by GSVA package
gsva
updated 3.0 years ago by ★ 2.7k • written 3.0 years ago by • 0
1
vote
2
replies
563
views
Input genes for GSVA
gsva gene expression matrix
updated 3.3 years ago by ★ 2.7k • written 3.3 years ago by ▴ 60
0
votes
4
replies
481
views
The selection of bandwidth of GSVA
GSVA gsva
updated 3.4 years ago by ★ 2.7k • written 3.4 years ago by • 0
1
vote
2
replies
821
views
GSVA for single sample
gsea gsva ssgsea
3.5 years ago jaison75 ▴ 20
5
votes
16
replies
958
views
GSVA package scores are opposite on mac and windows
GSVA bug gsva bugs
updated 3.8 years ago by ★ 2.7k • written 3.8 years ago by ▴ 10
0
votes
1
reply
808
views
Set rnaseq locial flag during GSVA
gsva rnaseq tpm
updated 3.9 years ago by ★ 2.7k • written 4.0 years ago by • 0
3
votes
2
replies
1.2k
views
GSVA: questions about the bootstrap p-value
gsva
updated 4.1 years ago by ★ 2.7k • written 4.1 years ago by ▴ 20
2
votes
9
replies
4.5k
views
Does GSVA enrichment score comes negative?
GSVA
5.1 years ago • updated 4.2 years ago pbachali ▴ 20
8
votes
3
replies
1.3k
views
GSVA indifferent to 'abs.ranking'
GSVA gsva abs.ranking
updated 4.2 years ago by ★ 2.7k • written 4.2 years ago by ▴ 110
3
votes
2
replies
744
views
Crash GSVA 1.24.0 with bootstrapping
GSVA bug
updated 4.2 years ago by ★ 2.7k • written 4.2 years ago by ▴ 20
0
votes
1
reply
768
views
GSVA es.obs why range is between -1 and 1
gsva
4.9 years ago Adrian Johnson ▴ 330
1
vote
0
replies
895
views
Pre-processing of RNA sequencing data for GSVA
rnaseq rna-seq preprocessing gsva
4.9 years ago t.kuilman 170
1
vote
2
replies
625
views
Method to be used in gsva() function
GSVA
5.0 years ago pbachali ▴ 20
0
votes
3
replies
744
views
GSVA (1.18.0) segfaulting on small dataset
gsva segfault
updated 5.2 years ago by ★ 2.7k • written 5.2 years ago by ▴ 120
2
votes
5
replies
1.4k
views
GSVA error - incomplete instalation?
GSVA ExpressionSet
5.7 years ago thrabe • 0
2
votes
1
reply
2.3k
views
Dealing with the output of ssGSEA method from GSVA package
gsva ssgsea
5.7 years ago Momeneh Foroutan ▴ 10
2
votes
2
replies
1.5k
views
Error in running gsva function from GSVA package
gsva
updated 5.7 years ago by ★ 2.7k • written 5.7 years ago by ▴ 10
0
votes
2
replies
1.1k
views
Problem in running GSVA
GSVA getting error in gsva function
6.5 years ago sathyabaarathi • 0
0
votes
8
replies
2.2k
views
GSVA: problem with chip annotation
gsva
updated 6.7 years ago by ★ 2.7k • written 6.7 years ago by • 0
2
votes
5
replies
1.6k
views
Problem encountered when running GSVA for RNAseq
gsva rnaseq
updated 6.7 years ago by ★ 2.7k • written 6.8 years ago by • 0
0
votes
0
replies
816
views
enrichment packages that accept t-stat (or related stat) as input
Microarray limma Category CAMERA GSVA Microarray limma Category CAMERA GSVA
7.8 years ago Gordon Smyth 43k
0
votes
0
replies
691
views
enrichment packages that accept t-stat (or related stat) as input
Microarray Proteomics limma Category CAMERA GSVA Microarray Proteomics limma Category
7.8 years ago Pekka Kohonen ▴ 190
0
votes
5
replies
1.5k
views
GSVA questions
cdf GSVA cdf GSVA
7.9 years ago Guest User ★ 12k
50 results • Page 1 of 1
Recent ...
Replies
Answer: How to extract DEG from limmarResults object after beadarray analysis by Gordon Smyth 43k
I am the limma package author, but I don't know how to help you. The beadarray package has done a standard limma analysis but, instead of s…
Comment: An error using Diffbind plotprofile by doug.barrows • 0
Hi there, it's hard to tell how to debug without having the data. Could you potentially send me the object you are attempting to use for th…
Comment: DESeq2 Shrinkage methods for scRNA-Seq by Pedro Tan • 0
Thanks Michael! I will stick to apeglm and incorporate alternate size factors for single cell data. All the best, Pedro
Answer: Macbook M1 install genefilter failed by soda ▴ 10
i have solved this problem by myself. share with you. you need to download gfortran in path /opt/R/arm64/bin this website helped me: **h…
Comment: Best practice for quantifying sncRNA by James W. MacDonald 57k
If you used the QIASeq miRNA library, then you are wasting your time. That library adds the UMI barcodes and is intended for you to then up…
Votes
Answer: Macbook M1 install genefilter failed
BioCAsia Virtual Meeting, 15-18 October 2020
Answer: Selecting pairs of exons from differentially spliced genes
Comment: Idea: Using DESeq2 to test a change in ratio of two genes
Time Series Analysis
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