User: jiangpeng59

gravatar for jiangpeng59
jiangpeng5910
Reputation:
10
Status:
New User
Location:
Last seen:
1 day, 16 hours ago
Joined:
1 month, 2 weeks ago
Email:
j**********@qq.com

Posts by jiangpeng59

<prev • 7 results • page 1 of 1 • next >
0
votes
0
answers
118
views
0
answers
how can I use sift score to filter variant correctly ?
... From annovar documents, we know thta SIFT predicts whether an amino acid substitution affects protein [D: Deleterious (sift<=0.05); T: tolerated (sift>0.05)] now I got a lot of variants, and I went to select the candidate variants caused a cancer with sift. Assuming that we use annovar to get ...
sift annovar written 4 weeks ago by jiangpeng5910
1
vote
1
answer
169
views
1
answers
Comment: C: How can I do in GTAK downstream analysis?
... Thanks for your reply, Garan, I think the sample is a singletons, more precisely, it is a tumor(glioma). these samples come from 20 individual and no normal sample. ...
written 4 weeks ago by jiangpeng5910
0
votes
1
answer
169
views
1
answers
Comment: C: How can I do in GTAK downstream analysis?
... Thanks for your reply, I added a description of the problem. ...
written 4 weeks ago by jiangpeng5910
0
votes
1
answer
169
views
1
answers
Comment: C: How can I do in GTAK downstream analysis?
... Thanks for your reply, I added a description of the problem ,and I tried an annotation tool named 'annova' ...
written 4 weeks ago by jiangpeng5910
0
votes
1
answer
169
views
1
answers
Comment: C: How can I do in GTAK downstream analysis?
... Yes, I got a vcf with gatk_v4.1.0.0, here is part of the output. #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT GXZ-T1 P_11 P_12 P_13 P_16 P_17 P_18 P_3 P_4 P_6 P_7 S1448662 S1450168 S1534039 SLJ-T1 TZ-T1 ZAL-T1 ...
written 4 weeks ago by jiangpeng5910
3
votes
1
answer
169
views
5 follow
1
answer
How can I do in GTAK downstream analysis?
... Hi, friends I have finished call variants via GTAK best practices(joint-call) with 20 WES samples. My goal is to find the genes that may causes the disease from these 20 samples, I also tried some tools and methods, but I don't whether they are rigth. So, Is there a good guidance documentation like ...
gtak written 5 weeks ago by jiangpeng5910 • updated 4 weeks ago by Garan570
1
vote
1
answer
117
views
1
answer
how to use existed database to filter snps in vcf with MAF
... I am reading a research paper that uses GATK to call variants and filtration. > Annotated variants were subsequently filtered to exclude the variants greater or equal to 1% of minor allele frequency based on dbSNP135 and the 1000 genome project and the NHLBI Exome Variant server (EVS). " I get ...
maf written 5 weeks ago by jiangpeng5910 • updated 5 weeks ago by jared.andrews072.3k

Latest awards to jiangpeng59

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 893 users visited in the last hour