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Student
samples
sampleNumbers
DESeq2
written 2.0 years ago by
Lidia
• 0
6
votes
4
replies
1.5k
views
Which rlog should I use for DESeq2 analysis
samples
rlog
DESeq2
updated 2.5 years ago by
Michael Love
41k • written 2.5 years ago by
rafaelsolersanblas
▴ 50
0
votes
1
reply
649
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Paired samples in DESeq2
R
deseq2
Paired
Samples
updated 5.2 years ago by
Michael Love
41k • written 5.2 years ago by
m.wekking
• 0
2
votes
1
reply
869
views
edgeR normalisation which samples to include
edger
normalization
samples
comparisons
updated 6.6 years ago by
Gordon Smyth
50k • written 6.6 years ago by
roser.navarro
• 0
4 results • Page
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Comment: Differences in differential analysis methods for RNA-Seq
by
ATpoint
★ 4.1k
> I am just re-processing due to being uncertain about how they used the edgeR analysis to reach gene level edgeR devs published something…
Comment: Differences in differential analysis methods for RNA-Seq
by
james.zhang20
• 0
Thanks for the explanations, it has helped clarify some things. Unfortunately, I am working from an early access public dataset (https://do…
Comment: Deseq2 and Normalization of RNA sequencing data
by
ATpoint
★ 4.1k
There is no expectation of normality that is realistic in terms of expression level. Levels are widely different between genes, and counts …
Comment: Differences in differential analysis methods for RNA-Seq
by
ATpoint
★ 4.1k
MAGeCK is a command line tool that is easy to use. I recommend you use it because a) the logFCs from DESeq2 and MAGeCK will be very similar…
Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
by
Yveto
• 0
Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
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