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Michael Love
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0
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3
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949
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DESeq2 time course with two genotypes
deseq2
timecourse
michael love
multiple time points
4.6 years ago
cp1015
• 0
0
votes
4
replies
726
views
DESeq2 Design Formula
DESeq2
michael love
updated 5.3 years ago by
Michael Love
41k • written 5.3 years ago by
gkuffel
▴ 10
0
votes
1
reply
1.0k
views
DESeq2 PCA plotting
deseq2
michael love
updated 5.4 years ago by
Michael Love
41k • written 5.4 years ago by
sam.far.7
• 0
1
vote
11
replies
1.5k
views
Need help with DESeq2's contrast feature
deseq2
michael love
updated 5.7 years ago by
Michael Love
41k • written 5.7 years ago by
Ashu
▴ 10
2
votes
3
replies
1.5k
views
DESeq2 for time series using time as continuous and looking at effect of time on DE
deseq2
timecourse
multiple time points
mlr
michael love
updated 5.8 years ago by
Michael Love
41k • written 5.9 years ago by
ap874
• 0
5
votes
10
replies
11k
views
Constructing tx2gene for Salmon txImport Quantification using Gencode Mouse Transcript Annotation
Michael Love
Salmon
tximport
tx2gene
updated 6.2 years ago by
Michael Love
41k • written 6.2 years ago by
pvd2107
▴ 30
6 results • Page
1 of 1
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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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Rory Stark
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tangming2005
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