The editor has been updated to markdown! Please see more info at: Tutorial: Updated Support Site Editor

Question: read.HTSeqCounts with count matrix
gravatar for Alpesh Querer
5.6 years ago by
Alpesh Querer220
Alpesh Querer220 wrote:
Hello, I`m trying to create an exon count object, there seems to be 2 ways Using newExonCountSet, arguments needed include counts matrix, geneID, exonID,transcriptID etc. Using read.HTSeqCounts, arguments needed include filelist, annotation file etc. How can I use read.HTSeqCounts with the argument counts as input instead of providing a file list? I already have a matrix of counts for each exon bin (created by a combination of and some processing on my end) and a flattened annotation file (obtained from I understand that I could use newExonCountSet instead, but extracting the transcripts argument from the annotations file seems non-trivial, and I want to detect differentially expressed transcripts an also plot them. Please advise. Thanks, Al [[alternative HTML version deleted]]
annotation • 487 views
ADD COMMENTlink written 5.6 years ago by Alpesh Querer220
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 334 users visited in the last hour