Is phased vcf files available for all WES samples? (450K) Former User of DNAx Community_44 19 January 2023 00:00 5 comments Comments 5 comments Sort by Date Votes Chai Fungtammasan DNAnexus Team 19 January 2023 17:07 Which field-id are you referring to? There are phase impute data and WES data which are different. They both have been released. Also, the final release has 470k WES. 0 Former User of DNAx Community_44 25 January 2023 00:54 Thank you Chai for your reply. Yes, both data are present. But I believed the phase impute data is Micro-array. Is phased VCF available for WES data? 0 Chai Fungtammasan DNAnexus Team 25 January 2023 04:53 Yes, the current phase impute data is microarray. There is no phase VCF WES on UKB-RAP currently, and I also don't see this in future data release note: https://www.ukbiobank.ac.uk/enable-your-research/about-our-data/future-data-release-timelines?src=future_timelines What kind of phasing tool you are looking to use and what would this phase WES data be used for? I see a recent publication https://www.cell.com/ajhg/pdfExtended/S0002-9297(22)00499-2 which have pipeline/tool that you need. 0 Chai Fungtammasan DNAnexus Team 18 February 2023 05:29 @Sudhir Jadhao? UKB now has a plan to release phased sequencing data. There will be a talk about this up-coming data if you are interested. Most likely it would come out in early Q3 this year. https://dnanexus.zoom.us/meeting/register/tJIpduGoqTojHNVHdSQoINr0P46ZL5Quh12k 0 Former User of DNAx Community_44 22 June 2023 04:07 Thank you Chai!! for your reply. Please let us know when the phased data is available. Best,Sudhir 0 Please sign in to leave a comment.
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Which field-id are you referring to?
There are phase impute data and WES data which are different. They both have been released.
Also, the final release has 470k WES.
Thank you Chai for your reply.
Yes, both data are present.
But I believed the phase impute data is Micro-array.
Is phased VCF available for WES data?
Yes, the current phase impute data is microarray.
There is no phase VCF WES on UKB-RAP currently, and I also don't see this in future data release note: https://www.ukbiobank.ac.uk/enable-your-research/about-our-data/future-data-release-timelines?src=future_timelines
What kind of phasing tool you are looking to use and what would this phase WES data be used for? I see a recent publication https://www.cell.com/ajhg/pdfExtended/S0002-9297(22)00499-2 which have pipeline/tool that you need.
@Sudhir Jadhao? UKB now has a plan to release phased sequencing data. There will be a talk about this up-coming data if you are interested. Most likely it would come out in early Q3 this year.
https://dnanexus.zoom.us/meeting/register/tJIpduGoqTojHNVHdSQoINr0P46ZL5Quh12k
Thank you Chai!! for your reply.
Please let us know when the phased data is available.
Best,
Sudhir
Please sign in to leave a comment.