Jared Simpson
Jared Simpson
What variant of FASTQ is that? I don't recognise the SAM-like key/value pair. On Mon, Jul 25, 2016 at 5:57 PM, Shaun Jackman [email protected] wrote: > sga-align -t 64 --name...
Is it safe to assume that the first record is always the first end of the pair? Alternatively you could use the uncorrected reads in scaffolding (which I typically recommend...
I haven't seen that one before - did you use the `-mean` setting for DistanceEst?
I'm at a bit of a loss - could you send the .scaf file and .asqg.gz (or contig fasta, if the error appears with that input too). I won't be...
Sorry, no. My time is short these days I'm afraid. Is this blocking you from something?
The former - it is the final list of contigs that go into scaffolds.
Hi Shaun, Agreed about GFA2. I describe the file format here: https://groups.google.com/forum/#!msg/sga-users/0pqCJwpPe8A/RRvCVPKU25QJ;context-place=forum/sga-users The orientation bit describes whether the scaffold should be built left-to-right (the first contig in the record is...
Yes I believe that is correct but verify :) On Wed, Nov 2, 2016 at 1:48 PM, Shaun Jackman [email protected] wrote: > No worries, Jared. Quick comments are helpful. We're...
Great, thanks for the script.
Thanks for the report, I will look into this.