Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
gsva
•
reset
0
votes
0
replies
151
views
How to aggregate pseudobulks: Normalization & Log-Transformation
pseudobulk
scRNAseq
GSVA
6 weeks ago
Tadeoye
• 0
0
votes
2
replies
175
views
GSVA with and without absolute scaling method
GSVA
6 weeks ago
arashdeep singh
• 0
2
votes
4
replies
460
views
Failed to install Biobase
GSVA
Biobase
updated 8 weeks ago by
James W. MacDonald
62k • written 9 weeks ago by
johann.brisseau
• 0
2
votes
5
replies
379
views
How can I avoid artifacts in gene set/pathway scoring by UCell and similar algorithms?
escape
UCell
GSVA
3 months ago
Omer
• 0
0
votes
3
replies
233
views
GSVA: Error loading interactive web app
igsva
GSVA
updated 3 months ago by
Robert Castelo
★ 3.0k • written 3 months ago by
sharvari gujja
▴ 40
0
votes
3
replies
239
views
GSVA results interpretation
GSVA
updated 4 months ago by
Robert Castelo
★ 3.0k • written 4 months ago by
munta.jihad
• 0
0
votes
0
replies
171
views
Trying to use a NanoString expression set with batch effects to do GSVA
GSVA
Normalization
BatchEffect
GSVAdata
NanoString
4 months ago
Zhijie
• 0
0
votes
0
replies
278
views
Job:
Research software engineer at UPF Barcelona
JobPosting
Devel
GSVA
Software
6 months ago
Robert Castelo
★ 3.0k
1
vote
5
replies
586
views
'combined score' calculation with singscore vs gsva
singscore
GSVA
6 months ago
rocanja
▴ 60
5
votes
9
replies
916
views
GSVA perfomed on RSEM Expected Count data
GSVA
RNA-Seq
RSEM
Expected_Count
10 months ago
Yang Shi
▴ 10
3
votes
4
replies
943
views
Why Negative value from GSVA
GSVA
RNASeq
edgeR
10 months ago
Yang Shi
▴ 10
0
votes
3
replies
737
views
Should 0 values for gene counts be removed prior to ssGSEA/GSVA analysis?
GSEA
GSVA
updated 6 months ago by
rocanja
▴ 60 • written 10 months ago by
João
• 0
1
vote
2
replies
574
views
Can GSVA be applied in several sample type and each type only have two replicates ?
GSVA
21 months ago • updated 12 months ago
Guandong Shang
▴ 40
2
votes
2
replies
564
views
How to run GSVA with partially NA genes
GSVA
12 months ago
blakebowen
• 0
1
vote
3
replies
2.7k
views
GSVA and ssGSEA output differences
enrichment
GSVA
enrichplot
ssGSEA
updated 14 months ago by
Robert Castelo
★ 3.0k • written 14 months ago by
Davide
• 0
1
vote
1
reply
549
views
Cleaning GeneSets from GSEA
msigdb
GSEABase
GSVA
updated 14 months ago by
Robert Castelo
★ 3.0k • written 14 months ago by
forlani.luca
• 0
0
votes
1
reply
417
views
Running PLAGE gets killed
GSVA
SingleCellData
updated 14 months ago by
Robert Castelo
★ 3.0k • written 14 months ago by
Amna
• 0
0
votes
1
reply
713
views
GSVA: for a pathway, can enrichment scores of all samples be negative?
GSVAdata
GSVA
updated 14 months ago by
Robert Castelo
★ 3.0k • written 14 months ago by
random
• 0
0
votes
1
reply
675
views
GSVA package normalization on gene-length ?
GSVA
updated 17 months ago by
Robert Castelo
★ 3.0k • written 17 months ago by
xanthexu
• 0
1
vote
11
replies
1.9k
views
Error in .local(expr, gset.idx.list, ...) : Please install the nnotation package hgu95a, but I can't install hgu95a
GSVA
updated 22 months ago by
soudayo
▴ 10 • written 2.8 years ago by
yaoxucpu
• 0
2
votes
2
replies
1.2k
views
Questions regard to GSVA and Limma
limma
GSVA
23 months ago
Chenxi
• 0
2
votes
2
replies
462
views
Turn of GSVA filtering for method ssGSEA
GSVA
23 months ago
k.vitting.seerup
▴ 120
1
vote
2
replies
938
views
Issue with GSVA using dgCMatrix
GSVA
23 months ago
resa
• 0
0
votes
1
reply
1.8k
views
GSVA Problem
GSVA
updated 2.0 years ago by
Robert Castelo
★ 3.0k • written 2.0 years ago by
tywzlzl2011
• 0
6
votes
4
replies
1.2k
views
Discrepancy in GSVA for Nanostring when using normalized counts vs rlog as input
GSVA
2.3 years ago
hanyin.wang88
▴ 10
0
votes
8
replies
3.6k
views
GSVA Error in .mapGeneSetsToFeatures(mapped.gset.idx.list, rownames(expr))
GSVA
updated 8 months ago by
Robert Castelo
★ 3.0k • written 2.3 years ago by
Siyuan
• 0
2
votes
3
replies
1.3k
views
Selecting or not selecting samples before running GSVA
GSVA
updated 2.4 years ago by
Robert Castelo
★ 3.0k • written 2.4 years ago by
hsiowa2
▴ 20
0
votes
3
replies
877
views
GSVA on gene sets with 2 genes
GSVA
gene sets
RNA-seq
updated 2.6 years ago by
Robert Castelo
★ 3.0k • written 2.6 years ago by
Endre Sebestyén
▴ 60
0
votes
1
reply
696
views
Extract GSVA gene rank matrix
gsva
updated 2.8 years ago by
Robert Castelo
★ 3.0k • written 2.8 years ago by
dylan
• 0
2
votes
1
reply
1.3k
views
pre-filtering gene sets for GSVA/ssGSEA
gsea
ssgsea
gsva
pathways
updated 2.9 years ago by
Robert Castelo
★ 3.0k • written 2.9 years ago by
igor
▴ 40
2
votes
2
replies
1.3k
views
Using GSVA All the pathway score are same
GSVA
scRNA-seq data
updated 2.9 years ago by
Robert Castelo
★ 3.0k • written 2.9 years ago by
initialqy
• 0
2
votes
10
replies
2.5k
views
How to compare two or more GSVA outputs, when it is not possible to run GSVA at once
gsva
updated 2.9 years ago by
Robert Castelo
★ 3.0k • written 2.9 years ago by
hsiowa2
▴ 20
0
votes
1
reply
1.1k
views
GSVA on integrated/batch corrected scRNAseq data
GSVA
Job
updated 3.0 years ago by
Robert Castelo
★ 3.0k • written 3.0 years ago by
laura.derooij
• 0
1
vote
12
replies
1.5k
views
GSVA (running group samples separately)
GSVA
updated 3.1 years ago by
Robert Castelo
★ 3.0k • written 3.1 years ago by
Jenn
▴ 30
7
votes
11
replies
1.5k
views
Updating Gene Annotation in GeneSetCollection {GSEABase}
GSEABase
annotation
gsea
gsva
GeneSetCollection
updated 3.1 years ago by
Robert Castelo
★ 3.0k • written 3.1 years ago by
rocanja
▴ 60
0
votes
1
reply
1.1k
views
Method and kcdf arguments in gsva package
GSVA
updated 3.1 years ago by
Robert Castelo
★ 3.0k • written 3.1 years ago by
thkapell
▴ 10
8
votes
6
replies
18k
views
Single Sample GSEA (ssGSEA) and dynamic range of expression
ssgsea
gsva
piano
egsea
updated 2.2 years ago by
calvin99
▴ 10 • written 5.8 years ago by
sina.nassiri
▴ 120
1
vote
4
replies
3.6k
views
GSVA on RNAseq data
gsva
rnaseq
updated 4.1 years ago by
Robert Castelo
★ 3.0k • written 4.1 years ago by
rocanja
▴ 60
0
votes
1
reply
619
views
GSVA lots of positive values, is this expected behavior?
gsva
updated 4.1 years ago by
Robert Castelo
★ 3.0k • written 4.1 years ago by
owen.whitley
▴ 10
1
vote
1
reply
1.1k
views
GSVA with NanoString nCounter data
GSVA
Nanostring
4.9 years ago • updated 4.2 years ago
SB
• 0
5
votes
4
replies
2.1k
views
Differential expression on GSVA scores using LIMMA
limma
gsva
updated 4.2 years ago by
Robert Castelo
★ 3.0k • written 4.2 years ago by
rocanja
▴ 60
2
votes
4
replies
1.7k
views
Are singscore scores comparable between gene sets?
singscore
GSVA
GSEA
subtypes
geneset
updated 2.4 years ago by
bhuva.d
• 0 • written 4.2 years ago by
Pietro
▴ 40
10
votes
10
replies
4.7k
views
Pre-processing RNA-seq data (normalization and transformation) for GSVA
gsva
gene set variation analysis
normalization
transformation
rna-seq
5.2 years ago • updated 4.4 years ago
rached
▴ 50
0
votes
0
replies
759
views
Tumor subtype classification when genes of gene set are missing from samples - GSVA approach
GSVA
geneset
RNASeq
TCGA
subtypes
4.4 years ago
Pietro
▴ 40
1
vote
1
reply
885
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
4.4 years ago
krassowski.michal
▴ 20
2
votes
1
reply
878
views
GSVA tutorial brainTxDb oligodendrocytic_dn neuronal_dn are same genesets
GSVA
tutorial
updated 4.7 years ago by
Robert Castelo
★ 3.0k • written 4.7 years ago by
owen.whitley
▴ 10
1
vote
4
replies
1.4k
views
Meaning of zero for ssGESA value calculated by GSVA package
gsva
updated 4.9 years ago by
Robert Castelo
★ 3.0k • written 4.9 years ago by
Shi-Xiang Wang
• 0
2
votes
2
replies
1.3k
views
Input genes for GSVA
gsva
gene expression matrix
updated 5.1 years ago by
Robert Castelo
★ 3.0k • written 5.1 years ago by
CodeAway
▴ 70
0
votes
4
replies
960
views
The selection of bandwidth of GSVA
GSVA
gsva
updated 5.2 years ago by
Robert Castelo
★ 3.0k • written 5.2 years ago by
Xingyu
• 0
1
vote
2
replies
1.7k
views
GSVA for single sample
gsea
gsva
ssgsea
5.3 years ago
jaison75
▴ 20
50 results • Page
1 of 1
Recent ...
Replies
Answer: Trouble Loading Data into Champ
by
hfbarrerat
• 0
Try myLoad <- champ.load("raw/",arraytype="EPIC")
Comment: BiocGenerics binary is outdated for macOS ARM
by
jennifer.wokaty
▴ 60
Thanks, Mike, for posting about this and thanks to Lori for noticing the lock. I removed it and RProtoBufLib passes R CMD check. Unfortunat…
Comment: BiocGenerics binary is outdated for macOS ARM
by
Michael Steinbaugh
▴ 90
Ah thanks for the update. Yeah I see that the flowClust release is the culprit: https://www.bioconductor.org/packages/release/bioc/html/flo…
Comment: Submitting BSgenome package for a new assembly
by
Manish
• 0
Thanks for the info. This is very helpful. -Manish
Comment: Merge 2 accounts, or delete 1 account.
by
shepherl
3.5k
are you talking specifically on the support site or elsewhere also?
Votes
flowCore: using read.FCS with which.lines is not time efficient?
Comment: BiocGenerics binary is outdated for macOS ARM
Comment: Submitting BSgenome package for a new assembly
How to create "trait data" file for WGCNA
Comment: Visualization of negative log CPM values
Awards
• All
Popular Question
to
kevin.rue
▴ 320
Popular Question
to
Miss Agnieszka Aleksandra Golicz
▴ 40
Popular Question
to
shepherl
3.5k
Popular Question
to
boczniak767
▴ 720
Scholar
to
Gordon Smyth
47k
Locations
• All
Colombia,
just now
United States,
5 minutes ago
United States,
14 minutes ago
The city by the bay,
41 minutes ago
United States,
46 minutes ago
Traffic: 578 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