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BatchEffect
•
reset
0
votes
0
replies
7
views
Batch effect correction: methylome data
sesame
BatchEffect
MethylationArray
1 hour ago
Seungmin
• 0
2
votes
9
replies
406
views
Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
DESeq2
RUVSeq
RUVseq
BatchEffect
DES
updated 16 days ago by
James W. MacDonald
65k • written 17 days ago by
Alexandre
• 0
0
votes
2
replies
223
views
RNAseq:Technical replicates from different batches
technicalReplicates
BatchEffect
limma
RNASeq
23 days ago • updated 20 days ago
catv
• 0
0
votes
8
replies
431
views
DESeq and SVA for batch effect
DESeq2
BatchEffect
sva
9 weeks ago
michelafrancesconi8
• 0
1
vote
3
replies
376
views
DESEQ2 Batch Effect
DESeq2
BatchEffect
RNASeq
updated 9 weeks ago by
swbarnes2
★ 1.4k • written 10 weeks ago by
sap275
▴ 10
0
votes
0
replies
161
views
Can I combine collinear variables into a single value
BatchEffect
limma
10 weeks ago
Harrsha
• 0
2
votes
1
reply
271
views
Limma Question
DESeq2
BatchEffect
limma
RNASeq
updated 10 weeks ago by
Michael Love
42k • written 10 weeks ago by
sap275
▴ 10
0
votes
1
reply
327
views
When should I correct for batch effects
BatchEffect
SingleCellExperiment
updated 3 months ago by
James W. MacDonald
65k • written 3 months ago by
NeuroDaniel
• 0
0
votes
5
replies
591
views
Can SVs identified from sva be used for removeBatchEffect() in DESeq2
sva
DESeq2
BatchEffect
limma
updated 4 months ago by
ATpoint
★ 4.1k • written 4 months ago by
Xiao
• 0
2
votes
4
replies
660
views
Correct the batch effect in methylation analysis in R
BatchEffect
limma
methylationArrayAnalysis
updated 5 months ago by
Gordon Smyth
50k • written 5 months ago by
kyj2226
• 0
1
vote
4
replies
647
views
controling for batch effect while preserving variation within repeated measures that unevenly distributed across batches
miRNA
BatchEffect
RNASeq
limma
6 months ago
Wending
• 0
0
votes
4
replies
611
views
How to correct for known and surrogate variables in DESeq2?
DESeq2
BatchEffect
sva
limma
updated 25 days ago by
Michael Love
42k • written 6 months ago by
Crystal571
• 0
0
votes
1
reply
456
views
Batch effect adjust in model matrix
BatchEffect
edgeR
updated 7 months ago by
ATpoint
★ 4.1k • written 7 months ago by
Giuseppe
• 0
3
votes
5
replies
877
views
Getting batch corrected counts after RUVSeq
BatchEffect
RUVSeq
RNASeq
DESeq2
updated 8 months ago by
ATpoint
★ 4.1k • written 8 months ago by
Shashank
• 0
2
votes
5
replies
1.3k
views
removing the batch effect for vst counts and defining the batches in removeBatchEffect function
DESeq2
BatchEffect
limma
updated 9 months ago by
Gordon Smyth
50k • written 9 months ago by
Sara
• 0
2
votes
3
replies
1.1k
views
bulk RNA-seq analysis using R : batch effect : One question concerning Combat-seq and one question concerning DESeq2 design = batch + condition
BatchEffect
sva
DESeq2
RNASeqData
limma
updated 9 months ago by
James W. MacDonald
65k • written 9 months ago by
D-Bug
▴ 10
3
votes
4
replies
884
views
lfcShrink() and batch effects in DESeq2
BatchEffect
lfcshrink
RNA-seq
DESeq2
9 months ago
Eva
▴ 10
0
votes
2
replies
632
views
smallRNA-seq analysis batch correction in limma
BatchEffect
limma
9 months ago
Eleonora
• 0
1
vote
1
reply
464
views
Best way to handle batch effects from difference Mice?
RNASeqData
BatchEffect
edgeR
limma
updated 10 months ago by
Gordon Smyth
50k • written 10 months ago by
Sara
• 0
2
votes
3
replies
1.2k
views
PCA for QC should include subset of top variable genes or full set of genes in RNAseq data?
BatchQC
RNASeqData
sva
BatchEffect
updated 10 months ago by
ATpoint
★ 4.1k • written 10 months ago by
amnahsiddiqa
▴ 10
0
votes
0
replies
393
views
How to go for Batch correction in RNA-seq expeiment conducted based on imbalanced Experimental design ?
RNASeqData
BatchEffect
sva
10 months ago
amnahsiddiqa
▴ 10
1
vote
1
reply
501
views
WGCNA Cluster batch effect
BatchEffect
TCGA
WGCNA
updated 10 months ago by
ATpoint
★ 4.1k • written 10 months ago by
khaserdene99
• 0
2
votes
5
replies
1.2k
views
DESeq2 remove batch effect
BatchEffect
RNASeqData
WGCNA
DESeq2
updated 25 days ago by
Ashley
• 0 • written 11 months ago by
zxc741xb
• 0
1
vote
2
replies
985
views
Batch effect between biological replicates
BatchEffect
DESeq2
12 months ago
gtechbio
▴ 10
0
votes
1
reply
626
views
How to identify the batch informations from the sample ID?
TCGAbiolinks
BatchQC
BatchEffect
updated 8 months ago by
wrab425
• 0 • written 14 months ago by
snijesh
▴ 20
2
votes
4
replies
1.2k
views
RNAseq : identical sample-sample distances after using limma::removeBatchEffect
DESeq2
RNASeq
BatchEffect
limma
updated 8 months ago by
Michael Love
42k • written 2.9 years ago by
athiebaut
• 0
26 results • Page
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• 0
thank you so much and sorry for bothering you again and again, it is urgent because it is my project deadline. i have removed that sample a…
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by
swbarnes2
★ 1.4k
Ask the people who made the libraires if there was anything unusual in the QC of the outlier sample. Try to figure out what biologically …
Comment: Can't post a question containing code?
by
NATASHA
• 0
did you find a solution? I´m having the same problem
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