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readCufflinks
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CuffSet instance with 0 samples
cummerbund
sqlite
readcufflinks
6.1 years ago
eculfa
• 0
0
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1
reply
1.2k
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KEGG with pathview using CuffDiff data
kegg
readcufflinks
cuffdiff
cuff
updated 6.5 years ago by
thokall
▴ 160 • written 6.5 years ago by
pierre.biojoux
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0
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0
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926
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CummeRbund fail with example directory
cummerbund
readcufflinks
6.8 years ago
tommy.vo
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0
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0
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1.4k
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Problems in building Cummerbundcuff Database
cummerbund
readcufflinks
geneset
8.3 years ago
alessio.stevano
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0
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1.5k
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error while buliding database in readCufflinks in CummeRbund package
cummerbund
readCufflinks
8.4 years ago
Pinal
• 0
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Comment: More regions in union when increasing DBA$config$mergeOverlap
by
Ian D.
▴ 70
Hello. Thanks for the reply. Sorry about this. My testing is telling me that 1 is the default (a gap), not -1 (1bp overlap). Negative …
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…
Answer: 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…
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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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