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4
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1
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1.1k
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5 follow
1
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Batch Effect in DESeq2, how to control, how to remove it, how to address biological question
deseq2 batch effect batch written 6 months ago by Mozart • 10
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2
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1.0k
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2
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DESeq2: Outliers, covariates and number of replicates
deseq2 ruvseq covariates batch cookscutoff written 3.1 years ago by j.viana • 0
2
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1
answer
586
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Does order of removeBatchEffect() and DE subsetting matter for clustered heat map visualization?
limma edger rna-seq removebatcheffect() batch written 3.8 years ago by Ekarl2 • 50 • updated 3.8 years ago by Aaron Lun • 25k
3
votes
1
answer
325
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1
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Correcting the batch effect in Edgeseq data
deseq2 batch edgeseq written 11 months ago by Fereshteh • 20 • updated 11 months ago by Michael Love ♦ 26k
3
votes
1
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278
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1
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Experimental design RNAseq differential expression
limma edger design batch contrasts written 8 months ago by Pietro • 20 • updated 8 months ago by Aaron Lun • 25k
6
votes
1
answer
211
views
8 follow
1
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Limma DEG analysis experiment with partial paired design + batch effect
limma paired batch written 3 months ago by english.server • 20 • updated 12 weeks ago by Gordon Smyth ♦ 39k
2
votes
1
answer
182
views
1
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DESeq2 one group vs multiple groups comparison in presence of batch effect
deseq2 batch comparison written 3 months ago by amin.ghareyazi • 0 • updated 3 months ago by Michael Love ♦ 26k
0
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1
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180
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1
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DESEQ2 Batch effect
deseq2 batch written 9 months ago by sherajilir • 0 • updated 9 months ago by Michael Love ♦ 26k
0
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1
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169
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1
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DESeq2, how to deal with batch effect: t-test or design matrix?
sva deseq2 design matrix batch t-test written 7 months ago by Mozart • 10 • updated 7 months ago by Michael Love ♦ 26k
3
votes
1
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109
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1
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DESeq2 indirect batch effect removal
deseq2 batch written 10 weeks ago by Solarion • 0 • updated 10 weeks ago by Michael Love ♦ 26k
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1
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93
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1
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Using RUVs on Deseq2 but clustering still seems wrong
deseq2 ruv batch written 10 weeks ago by r.tom • 0 • updated 10 weeks ago by Michael Love ♦ 26k
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