Question: FASTX error - quality score
gravatar for blur
4.2 years ago by
European Union
blur140 wrote:

Hi, I am using the FastX collapser option, with the Q33 option, as my reads were sequenced by illumina and yet I get an error msg: "invalid quality score data..."

the command I ran was fastx_collapser -Q33 -i infile.fq -o outfile.fq


fastx • 1.4k views
ADD COMMENTlink written 4.2 years ago by blur140

The part of the error message that you did not quote after the "..." probably contains relevant information. Can you fully quote the message and provide a minimal test example ?

ADD REPLYlink written 4.2 years ago by Charles Plessy2.7k

I figured it out - the file was corrupted, and a line existed with only quality scores and no sequence data.... Thanks!

ADD REPLYlink written 4.2 years ago by blur140
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1741 users visited in the last hour