I have multiple read count files in txt format, I don't know how to merge them all in a single file
0
0
Entering edit mode
18 months ago
rishav513 • 0

I have multiple read count files in txt format, I don't know how to merge them all in a single file so that I could use them for analysis purposes.

rnaseqR • 1.1k views
ADD COMMENT
0
Entering edit mode

Hi, could you please try to be a bit more specific about the following: txt format - which kind of format, produced by which program, what kind of technology, what was counted, genes, transcripts, exons, do all files contain the same identifiers in the same order? use them for analysis purposes - which kind analysis are you intending to perform and by which software? I could make some assumptions of a standard pipeline (RNAseq bam files into HTseq count (that is why you got multiple files), DE-analysis in R using DEseq2) but this is possibly 1. wrong and 2. you do not need to merge text files at all for this, instead do it in R.

ADD REPLY
0
Entering edit mode

I have multiple read count files of tRNA for which I want to do coexpression analysis

ADD REPLY
0
Entering edit mode

tRNA? that doesn't make much sense to me.

ADD REPLY
0
Entering edit mode

It is an RNA-Seq data

ADD REPLY
0
Entering edit mode

RNA-Seq data of tRNA

ADD REPLY
0
Entering edit mode

Not sure why that would be interesting, but the way to merge the files would be independent of what it is. Can you please edit your question, don't post as comment, to include an excerpt of 2 or 3 files.

ADD REPLY
0
Entering edit mode

ok sorry for that, but I think I can use this command in Linux to merge files

$ cat *.txt > merged-file

ADD REPLY

Login before adding your answer.

Traffic: 1792 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6