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Comment: TPM data Differential expression analysis by Gordon Smyth 45k
I have nothing to add my previous answer, which seems quite clear and umbiguous.
Answer: Difference between raw counts and featureCounts for DESeq2 by swbarnes2 ★ 1.0k
The count output from featureCounts is suitable for use with DESeq.
Comment: Subsetting operation on CompressedGRangesList object 'x' produces a result tha by Jiping Wang ▴ 70
Hi H. Do you have any clues what the bug or problem could be? thanks. Jiping
Answer: DESeq2 paired design: Differential list comparing fold changes by swbarnes2 ★ 1.0k
Sounds like you want interactions: http://bioconductor.org/packages/devel/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#interactions
Comment: TPM data Differential expression analysis by hnthirim ▴ 10
Hi @gordonsmyth, Question on your above answer: I have logTPM normalized data. Can I perform DE analysis using it on EdgeR, instead of in…
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Comment: Case Studies Data Missing in Rsubread
Answer: rtracklayer S.h
Answer: rtracklayer S.h
Answer: DESeq2: Extracting Averaged Counts Information from dds and rld
Answer: DESeq2: Extracting Averaged Counts Information from dds and rld
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Scholar to Gordon Smyth 45k
Scholar to jared.andrews07 ▴ 30
Scholar to vanbelj ▴ 10
Scholar to James W. MacDonald 59k
Popular Question to Johannes Rainer ★ 1.9k
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