User: whit18
whit18 • 20
- Reputation:
- 20
- Status:
- New User
- Location:
- Last seen:
- 1 year, 8 months ago
- Joined:
- 2 years ago
- Email:
- m***********@gmail.com
Posts by whit18
<prev
• 5 results •
page 1 of 1 •
next >
3
votes
1
answer
1.8k
views
5 follow
1
answer
... I followed the code on ShapeIt's website (http://www.shapeit.fr/pages/m03_phasing/imputation.html) to check strand alignment, and the results don't make sense, with the vast majority of the SNPs being listed as missing in the reference panel. The output is below in case it's helpful. I confirmed the ...
written 23 months ago by
whit18 • 20
• updated
7 weeks ago by
Kevin Blighe ♦ 52k
0
votes
2
answers
1.2k
views
2
answers
... Great, thanks! I can't find any good alternatives, but I'll definitely try merge-list ...
written 23 months ago by
whit18 • 20
3
votes
2
answers
1.2k
views
2
answers
... After Impute2, I'll have one file for each chromosome. I saw that PLINK can take each file, convert form binary, and then in another step merge them. Is this the best way to merge the chromosome files? Or is it better to merge the files before PLINK?
Thanks!! ...
0
votes
0
answers
758
views
0
answers
... "The first 5 entries of each line should be the SNP ID, RS ID of the SNP, base-pair position of the SNP, the allele coded A and the allele coded B."
http://www.stats.ox.ac.uk/~marchini/software/gwas/file_format.html ...
written 2.0 years ago by
whit18 • 20
1
vote
0
answers
758
views
0
answers
... I started with PLINK data files, and changed the .map file over to the UCSC .bed format in order to do LiftOver. Now I have the output from that (in UCSC .bed format), and need to get it ready for Impute2, but cannot figure how to change it into Impute2's required input format.
At this point, I'd ...
written 2.1 years ago by
whit18 • 20
Latest awards to whit18
No awards yet. Soon to come :-)
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 1001 users visited in the last hour