User: gubrins
gubrins • 60
- Reputation:
- 60
- Status:
- Trusted
- Location:
- Twitter:
- gubrins
- Last seen:
- 19 hours ago
- Joined:
- 9 months, 1 week ago
- Email:
- g*************@gmail.com
Posts by gubrins
<prev
• 83 results •
page 1 of 9 •
next >
0
votes
0
answers
32
views
0
answers
... Heys,
I'm working on population genomics and I would like to convert my vcf file to eigenstrat. I've been looking for internet but I did not find any common software that does it (maybe I missed some?) and I tried to run several scripts from github but it did not work. Anybody can help me on this?
...
written 3 days ago by
gubrins • 60
0
votes
0
answers
84
views
0
answers
... Heys,
I'm trying to run GATK on some BAM files I got. When I try, I obtain this error message:
> A USER ERROR has occurred: Argument emit-ref-confidence has a bad value: Can only be used in single sample mode currently. Use the --sample-name argument to run on a single sample out of a multi-sam ...
written 23 days ago by
gubrins • 60
• updated
23 days ago by
vareenjuriya • 0
0
votes
2
answers
446
views
2
answers
... I imagine this post answers your question: https://github.com/broadinstitute/picard/issues/1119
"When the input is coordinate-sorted, unmapped mates of mapped records and supplementary/secondary alignments are not marked
as duplicates. However, when the input is query-sorted (actually query-grouped ...
written 5 weeks ago by
gubrins • 60
0
votes
0
answers
130
views
0
answers
Comment:
C: Filter per tile quality
... I tried to filter them with filterbytile but it did not improve the results... Luckily I have the reference genome, thanks for your help! :) ...
written 6 weeks ago by
gubrins • 60
0
votes
0
answers
130
views
0
answers
Comment:
C: Filter per tile quality
... thanks, did you also check this one? Is not updating properly in the first message:
![picture 2][1]
[1]: https://i.ibb.co/Jn4R49J/per-tile-quality.png ...
written 6 weeks ago by
gubrins • 60
0
votes
0
answers
130
views
0
answers
Comment:
C: Filter per tile quality
... is it okey now? thanks for the message! ...
written 6 weeks ago by
gubrins • 60
3
votes
0
answers
130
views
0
answers
... Heys,
I'm working with whole-genome sequencing data of a non-model organism. I ran the FastQC for the quality control of the data and I found faliures both in adapter content and tile's quality. Adapter content is not an issue anymore, but I'm struggling with per tile sequence quality. I tried to f ...
written 6 weeks ago by
gubrins • 60
0
votes
0
answers
1.0k
views
0
answers
... I'm also interested!! ...
written 7 weeks ago by
gubrins • 60
1
vote
1
answer
221
views
1
answers
Comment:
C: genome coverage visualization
... Thanks again for your great answer! Although is not exactly what I need right now, I'm sure I'll use it in the future for checking the coverage of specific regions of my interest! Really interesting package, thanks again! ...
written 7 weeks ago by
gubrins • 60
0
votes
7
answers
61k
views
7
answers
... does it work if you are not interested into knowing the coverage per regions of interest but for all the data? ...
written 7 weeks ago by
gubrins • 60
Latest awards to gubrins
Supporter
8 months ago,
voted at least 25 times.
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 963 users visited in the last hour