Hey all,
I'm using an EdgeR suite (https://github.com/trinityrnaseq/GalaxyTrinityProtocol/wiki) in Galaxy to look at differential expression of RNA-seq data.
I'm just wondering what the C-value in the 'Analyze_Differential_Expression' tool in the last step is used for? It doesn't explain it in the wiki, and I've not read anything about a C-value in the Bioconductor manual.
I have a feeling it might be something to do with the fold change cutoff for extracting data. In the github protocol the author is looking for genes that have a minimum of a 4 fold difference, and they use a C-value of 2 to extract the data.
Thanks!
Kelli
Hi Devon,
Thanks so much for getting back to me! That clears it up perfectly!
Kel