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 :
removeBatchEffect
•
reset
2
votes
2
replies
487
views
Batch adjustment for cohort based RNA seq data
RNASeqPower
removeBatchEffect
cpm
Batcheffect
6 months ago
sukeshinik5
▴ 20
17
votes
9
replies
7.5k
views
How to use removeBatchEffect for removing effect of multiple confounding variables
limma
removebatcheffect
deseq2
updated 6 months ago by
James W. MacDonald
68k • written 8.8 years ago by
ompandey
▴ 10
4
votes
4
replies
1.3k
views
Using both voom and removeBatchEffect, will they double adjust the data or is it the right way to perform this
limma
adjustment
voom
removeBatchEffect
covariates
9 months ago
sukeshinik5
▴ 20
0
votes
2
replies
1.4k
views
Remove batch effect between microarray data
Microarray
DifferentialExpression
limma
MicroarrayData
removebatcheffect
2.2 years ago
dqt
• 0
0
votes
5
replies
5.2k
views
How to remove batch effect from RNA-seq without count data?
RUVSeq
FPKM
removeBatchEffect
RNA-seq
sva
updated 3.2 years ago by
ATpoint
★ 4.8k • written 4.0 years ago by
Xiaojie Cheng
• 0
0
votes
1
reply
1.0k
views
Should the design matrix for removeBatchEffect include an intercept?
removeBatchEffect
limma
updated 5.1 years ago by
Gordon Smyth
52k • written 5.1 years ago by
Sam
▴ 10
5
votes
7
replies
3.3k
views
logCPM to CPM conversion after removeBatchEffect()
edger
removeBatchEffect
cpm
logCPM
limma
5.8 years ago
altintas.ali
• 0
1
vote
6
replies
2.1k
views
edgeR removing batch effect before using expression data for clustering
edger
r
batcheffect
clustering
removeBatchEffect
updated 5.9 years ago by
James W. MacDonald
68k • written 5.9 years ago by
Biologist
▴ 120
2
votes
5
replies
4.9k
views
Batch Effect Correction
batch effect
removebatcheffect
edgeR
rld
DEseq2
6.7 years ago
Antonio Ahn
▴ 10
1
vote
1
reply
1.9k
views
Batch effect removal before SC3?
SC3
batch effect
removebatcheffect
updated 7.3 years ago by
Vladimir Kiselev
▴ 150 • written 7.3 years ago by
muad.abdelhay
▴ 10
11
votes
8
replies
12k
views
Limma and batch effect
limma
differential gene expression
clustering
removebatcheffect
updated 7.5 years ago by
Gordon Smyth
52k • written 7.5 years ago by
lirongrossmann
▴ 80
9
votes
8
replies
10k
views
removeBatchEffect options: design and covariates
limma
removebatcheffect
updated 7.5 years ago by
Gordon Smyth
52k • written 10.6 years ago by
Rao,Xiayu
▴ 550
0
votes
1
reply
2.8k
views
Error in solve.default(t(mod) %*% mod) : Lapack routine dgesv: system is exactly singular: U[4,4] = 0
sva
R
removebatcheffect
7.9 years ago
aina.jene
▴ 10
2
votes
2
replies
2.4k
views
SVA package - ERROR: nvobj = sva(edata, mod, mod0, n.sv=n.sv)
sva
removebatcheffect
R
updated 7.9 years ago by
sina.nassiri
▴ 130 • written 7.9 years ago by
aina.jene
▴ 10
1
vote
3
replies
1.6k
views
Re-use limma beta coefficients
limma
removebatcheffect
8.3 years ago
Keifa
▴ 10
3
votes
6
replies
3.0k
views
is it necessary to check batch effect in this case? and how to?
svaseq
combat sva
RANseq
batcheffect
removebatcheffect
updated 8.4 years ago by
Jakub
▴ 50 • written 8.4 years ago by
amoltej
▴ 10
0
votes
3
replies
1.7k
views
How to remove nested batch effects with removeBatchEffect?
edgeR
removeBatchEffect
nested design
updated 8.5 years ago by
Aaron Lun
★ 28k • written 8.5 years ago by
Jenny Drnevich
★ 2.0k
4
votes
5
replies
3.1k
views
Removing unwanted variation (RUV) for paired analysis ?
ruvseq
edger
ruvg
removebatcheffect
updated 9.1 years ago by
Aaron Lun
★ 28k • written 9.1 years ago by
g.atla
▴ 10
9
votes
10
replies
14k
views
Is the following a correct usage of Limma's removeBatchEffect() for clustered heat map generation?
limma
removeBatchEffect
heatmap
clustering
updated 9.2 years ago by
Bernd Klaus
▴ 610 • written 9.2 years ago by
Ekarl2
▴ 80
19 results • Page
1 of 1
Recent ...
Replies
Comment: Error in H5Dclose(h5dataset) when trying to read in kallisto h5 files
by
Mike Smith
★ 6.6k
Tricky to try and debug this without some example files to work with. Can you provide the output of `traceback()` called immediately after…
Answer: Mismatch between Illumina Mouse Methylation BeadChip annotation and genome brows
by
James W. MacDonald
68k
The annotation data that is provided for this array is simply a repackaging of data that we get from Illumina, so any apparent inconsistenc…
Answer: Package developing and interoperation with Bioconductor
by
James W. MacDonald
68k
Ideally you would have S4 methods that dispatch on the incoming data structure, so people could call your main function using a `data.frame…
Comment: ComBat with repeated measures
by
ATpoint
★ 4.8k
It looks to me that you do not need the batch information since subject is nested with batch so correcting for subject will do a paired ana…
Comment: Surprising behavior for DEXseq dispersion estimate plot?
by
ATpoint
★ 4.8k
You realize this is a spam bot talking to you?
Votes
Answer: CpGs with genomic positions greater than the chromosome size in EPICv2?
Answer: Explannation for ROAST results
A: How DiffBind run PCA based on peak data?
Looking for equivalent EPIC chip v1 vs. v2 annotation variables
Properly constructing a hypergeometric test
Awards
• All
Popular Question
to
hrishi27n
▴ 20
Supporter
to
bhanu.chandra1
• 0
Popular Question
to
Gordon Smyth
52k
Popular Question
to
mdeea123
▴ 10
Popular Question
to
GA
▴ 10
Locations
• All
United States,
1 minute ago
EMBL Heidelberg,
4 minutes ago
US,
6 minutes ago
United States,
21 minutes ago
United States,
34 minutes ago
Traffic: 769 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