User: Peavil

gravatar for Peavil
Peavil10
Reputation:
10
Status:
New User
Location:
Last seen:
22 hours ago
Joined:
1 year, 1 month ago
Email:
f********@gmail.com

Posts by Peavil

<prev • 15 results • page 1 of 2 • next >
0
votes
0
answers
170
views
0
answers
Criteria for denoting unknown data in cosmic db
... I am wondering the criteria for denoting unknown data in cosmic db. for example PIK3CA gene, Accession Number Gene CDS length HGNC ID Sample name ID_sample ID_tumour Primary site Site subtype 1 Site subtype 2 Site subtype 3 Primary histology Histology subtype 1 Histology subtype 2 Histology su ...
cosmic cosmic database cancer written 3 months ago by Peavil10 • updated 3 months ago by WouterDeCoster22k
0
votes
0
answers
310
views
0
answers
Comment: C: Question about MEMo(Mutual exclusivity modules) program
... No.. I can't find it. T^T ...
written 6 months ago by Peavil10
0
votes
0
answers
293
views
0
answers
Why does mpileup tell me the starting and ending base of a read?
... Mpileup tells the start and end base with $ or ^. chr1 1374834 A 19 gggGgggGggggGgggGg^Sg ===95=>9>=?:8@@@859 chr1 1551927 T 32 .$..,,,,..,..,..,...,,,,...,,.... I34>>=>1>==9>69><<<=??;<<= I wonder what these things mean. * Why is it telling ...
samtools mpileup written 9 months ago by Peavil10
0
votes
1
answer
301
views
1
answers
Comment: C: What is mean that mpileup read depth (read count) 0?
... thank you. I think I was mistaken for a while! ...
written 9 months ago by Peavil10
0
votes
1
answer
521
views
1
answers
Answer: A: Oncotator v1.8.0.0 usage, download database.
... I could solve the problem. That's because I did not install Oncotator properly. After installing Oncotator properly, I was able to run the program with the new DB. ...
written 9 months ago by Peavil10
0
votes
1
answer
301
views
1
answer
What is mean that mpileup read depth (read count) 0?
... Hi, I finish preprocess a bam file like base recalibrator, mark duplicate, ... and then, I run samtools mpileup with the bam. Most are in the form below. chr1 1007432 g 30 .$,$.,,..AAa,.AAa,,AA.aAa.A..,a, 3>5>;::@]<>::==>>4E6>>=8876@6< But, I ...
samtools mpileup written 9 months ago by Peavil10 • updated 9 months ago by Devon Ryan71k
0
votes
1
answer
521
views
1
answer
Oncotator v1.8.0.0 usage, download database.
... Hi. I used oncotator v1.8.0.0 with old-version database, It was running well. But, when I downloaded new database(oncotator_v1_ds_April052016.tar.gz. ) at (http://gatkforums.broadinstitute.org/gatk/discussion/4154/howto-install-and-run-oncotator-for-the-first-time), It doesn't run, and then p ...
database oncotator broad tool written 9 months ago by Peavil10
0
votes
1
answer
459
views
1
answers
Comment: C: when bwa mem run with different thread, output.sam is different.
... i appreciate your help. thanks again !! ...
written 9 months ago by Peavil10
0
votes
1
answer
459
views
1
answers
Comment: C: when bwa mem run with different thread, output.sam is different.
... First, thanks for your information. I'm confused, if a different data are low quality, shouldn't it filtered on pipeline like 'base recalibrator'? when I run Mutect2 with two different mapping data from one sample, they resulted slightly different number of 'PASS' filtered mutation from Mutect2 o ...
written 9 months ago by Peavil10
5
votes
1
answer
459
views
1
answer
when bwa mem run with different thread, output.sam is different.
... Hi, I run bwa-mem with same sample, different number of thread. and then, output file(sam) is different. my bwa version is 0.7.13, I see the bwa notice (https://github.com/lh3/bwa/blob/master/NEWS.md) > Release 0.7.13 (23 Feburary 2016) > Fixed a potential bug in the multithreading mode ...
mem alignment bwa sequencing written 9 months ago by Peavil10 • updated 9 months ago by genomax34k

Latest awards to Peavil

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: 952 users visited in the last hour