Announcement

Collapse

Welcome to the New Seqanswers!

Welcome to the new Seqanswers! We'd love your feedback, please post any you have to this topic: New Seqanswers Feedback.
See more
See less

featureCounts output to DESeq2?

Collapse
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • featureCounts output to DESeq2?

    I am doing an RNA-seq analysis where I have used featureCounts to count the number of reads per gene feature. The output looks like this:

    Geneid Chr Start End Strand Length sample.sorted.bam
    gene:CDR20291_3551 Chromosome 9450 9857 + 408 5
    gene:CDR20291_3552 Chromosome 9857 10630 + 774 53
    gene:EBG00000018530 Chromosome 10716 12345 + 1630 4

    Will DESeq2 understand this table? If not, how do I trim this to contain only the gene id from the first column and the counts from the last column?

    Thanks in advance!
Working...
X