Manifest File for Whole Genome Sequencing

KyuzoSeq · 03-14-2017, 12:04 AM

Hi,

I've been looking for the PCR regions or 'manifest file' for a whole genome sequencing kit? In an example there hundreds of WGS in 1000G project. They provide also exomes with BED files of targets. But there is no such info for genomes. Is there any thing that I missed? Is there a kit for whole genome sequencing and so its manifest file; or WGS is entirely different process than WES?

As a summary where do I find manifest like file for illumina's WGS or ex. 1000G project's?

tristan dubos · 03-14-2017, 12:55 AM

Hi ,

I think the "BED files" for WGS you are looking is the genome reference used to align the reads.
Best,

Tristan

finswimmer · 03-14-2017, 10:17 PM

Quote:

Originally Posted by KyuzoSeq

As a summary where do I find manifest like file for illumina's WGS or ex. 1000G project's?

As you are interessted in the whole genome sequence you wouldn't find any manifest file for WGS. The manifestfile defines the region to be analyzed after you received your fastq files. So in WGS you say: "Compare to the complete reference genome".

fin swimmer

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03-14-2017, 12:04 AM	#1
KyuzoSeq Junior Member Location: Turkey Join Date: Mar 2015 Posts: 9	Manifest File for Whole Genome Sequencing Hi, I've been looking for the PCR regions or 'manifest file' for a whole genome sequencing kit? In an example there hundreds of WGS in 1000G project. They provide also exomes with BED files of targets. But there is no such info for genomes. Is there any thing that I missed? Is there a kit for whole genome sequencing and so its manifest file; or WGS is entirely different process than WES? As a summary where do I find manifest like file for illumina's WGS or ex. 1000G project's?

03-14-2017, 12:55 AM	#2
tristan dubos Member Location: France Join Date: Dec 2015 Posts: 39	Hi , I think the "BED files" for WGS you are looking is the genome reference used to align the reads. Best, Tristan