[mira_talk] Re: duplicate read names not allowed ?
- From: Bastien Chevreux <bach@xxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Mon, 17 Sep 2012 20:41:54 +0200
On Sep 17, 2012, at 15:55 , Laurent MANCHON wrote:
> [...]
> in log file i have: MIRA found duplicate read names in your data,
> This should never, never be!
>
> but in manuel we can read: "the names of the reads can be either the very
> same in both files or already have a /1 or /2 appended."
The full sentence in the manual is:
"Depending on the preprocessing pipeline of your sequencing provider, the
names of the reads can ..."
I do concede that the sentence is ambiguous, I will change that to something
like:
The FASTQ naming must follow one of the known Illumina schemes: either have /1
and /2 appended to the read names (old Illumina pipeline) or have the read
names without /1 and /2, but hen supplemented with the standard Illumina
comment field which contains pair information. See also:
http://en.wikipedia.org/wiki/FASTQ_format#Illumina_sequence_identifiers
I suspect your files do not adhere to the above :-)
B.
Other related posts:
