Swissprot db annotate
Hello,
I wonder between genes.count.matrix and isoform count matrix from edgeR, which one should select for annotate with swissprot database?
Thank you
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worarado.kan •
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would it be possible to elaborate on your question? What data do yo have, what is your main question to answer, ...
A survey of best practices for RNA-seq data analysis
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4728800/
DESeq vs edgeR Comparison
http://www.gettinggeneticsdone.com/2012/09/deseq-vs-edger-comparison.html
edgeR: differential expression analysis of digital gene expression data
https://www.bioconductor.org/packages/devel/bioc/vignettes/edgeR/inst/doc/edgeRUsersGuide.pdf
See also this post:
From bam files to isoform read counts
The rest is just theory
http://www-huber.embl.de/pub/pdf/nprot.2013.099.pdf
https://web.expasy.org/docs/swiss-prot_guideline.html
http://cbsuss05.tc.cornell.edu/doc/Trinity_Lecture2.pdf
Thank you for your information