SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
edgeR: readDGE "no lines available in input" sindrle Bioinformatics 0 01-22-2014 07:00 AM
DEXSeq error in estimateDispersions: match.arg(start.method, c("log(y)", "mean")) fpadilla Bioinformatics 14 07-03-2013 03:11 PM
"samtools: no @sq lines in the header" - metagenome! PenelopeFudd Bioinformatics 11 08-12-2012 10:04 PM
The position file formats ".clocs" and "_pos.txt"? Ist there any difference? elgor Illumina/Solexa 0 06-27-2011 08:55 AM
"Systems biology and administration" & "Genome generation: no engineering allowed" seb567 Bioinformatics 0 05-25-2010 01:19 PM

Reply
 
Thread Tools
Old 04-24-2014, 02:00 PM   #1
lethalfang
Member
 
Location: San Francisco, CA

Join Date: Aug 2011
Posts: 91
Default Is there any "gold standard" VCFs for well-known cell lines?

Does anyone know if there is any "gold standard" of variant files (i.e., vcf files for somatic mutations) for well-known and well-studied cell lines like HCC1143, HCC1954?

There are things like this: http://www.broadinstitute.org/ccle/c...HCC1143_BREAST

But there has to be better ones out there.

Thanks.
lethalfang is offline   Reply With Quote
Old 04-25-2014, 02:57 PM   #2
jparsons
Member
 
Location: SF Bay Area

Join Date: Feb 2012
Posts: 62
Default

Take a look at genomeinabottle.org
Definitely looking towards producing what you're asking for, and available in the case of NA12878: ftp://ftp-trace.ncbi.nih.gov/giab/ft...ant_calls/NIST
jparsons is offline   Reply With Quote
Reply

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off




All times are GMT -8. The time now is 04:25 PM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2019, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO