User: susibing

gravatar for susibing
susibing20
Reputation:
20
Status:
New User
Location:
Last seen:
1 week, 5 days ago
Joined:
2 months, 3 weeks ago
Email:
s******@stud.uni-heidelberg.de

Posts by susibing

<prev • 7 results • page 1 of 1 • next >
1
vote
1
answer
89
views
1
answers
Answer: A: bedtools multicov - tab-delimited bam files?
... Thanks! It was indeed the gff input file that was not tab-delimited.. Thank you very much. (Feeling kind of stupid now..) ...
written 12 days ago by susibing20
4
votes
1
answer
89
views
1
answer
bedtools multicov - tab-delimited bam files?
... Dear all, I am trying to use bedtools multicov using six bam files as input and a gff file to compare with and unfortunately receive the error message: "It looks as though you have less than 3 columns at line: 1. Are you sure your files are tab-delimited?" Does anyone know how to find out whethe ...
bedtools tab-delimited multicov error message written 13 days ago by susibing20
1
vote
2
answers
226
views
2
answers
Answer: A: TCGA germline and somatic snvs
... Just as an additional: after being in contact with the NCI GDC support, turns out that germline snvs are hidden in the aggregated-somatic_mutation files that are with closed access, just not annotated as germline. I was told to overlap the open access and controlled access files to retrieve the germ ...
written 13 days ago by susibing20
0
votes
1
answer
4.4k
views
1
answers
Comment: C: TCGA: How to tell if the data is exome or WGS?
... As far as I can see, this column is not filled out in files from the harmonized portal. Does anybody has any idea why this is the case? And how I can find out about whether the variants are from WXS or WGS? ...
written 5 weeks ago by susibing20
1
vote
2
answers
226
views
2
answers
Comment: C: TCGA germline and somatic snvs
... Thank you very much! ...
written 11 weeks ago by susibing20
0
votes
1
answer
1.7k
views
1
answers
Comment: C: TCGA genotype data
... Dear kelly.wang135, I am sorry for the late request for clarification - you did indeed find germline mutations in the vcf file from the harmonzied portal? As far as I understood, all germline mutations are already filtered out in the vcf files, no? In case I have overseen something, please let me ...
written 12 weeks ago by susibing20
4
votes
2
answers
226
views
2
answers
TCGA germline and somatic snvs
... Dear all, I am looking for already called and annotated germline and somatic snvs from different TCGA projects and have already been approved through dbGaP for the data access. Unfortunately, it seems that in the harmonized data portal during variant calling all germline mutations are already fil ...
harmonized legacy tcga snv sequencing written 12 weeks ago by susibing20

Latest awards to susibing

Scholar 12 days ago, created an answer that has been accepted. For A: bedtools multicov - tab-delimited bam files?

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1524 users visited in the last hour