High Confidence SV calls?

[mozack]

Is there any set of high confidence structural variant calls available? I do not see any under the giab_latest_release directory.

[chunlinxiao]

Hi Lisle, GIAB consortium is working on it right now. SVs will be placed in release directory once they are ready. Thanks chunlin From: Lisle Mose [mailto:[email protected]] Sent: Tuesday, March 13, 2018 9:47 AM To: genome-in-a-bottle/giab_latest_release <[email protected]> Cc: Subscribed <[email protected]> Subject: [genome-in-a-bottle/giab_latest_release] High Confidence SV calls? (#6) Is there any set of high confidence structural variant calls available? I do not see any under the giab_latest_release directory. — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub<#6>, or mute the thread<https://github.com/notifications/unsubscribe-auth/AM6o1qHgeT8ENL35b03TQtemp0WcabD9ks5td82-gaJpZM4SoteJ>.

[jzook]

The current draft "strawman" set of large indel and SV calls for the AJ trio is described here, if you are interested in helping to evaluate them: ftp://ftp-trace.ncbi.nlm.nih.gov/giab/ftp/data/AshkenazimTrio/analysis/NIST_UnionSVs_12122017/

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On Tue, Mar 13, 2018 at 10:17 AM chunlinxiao ***@***.***> wrote: Hi Lisle, GIAB consortium is working on it right now. SVs will be placed in release directory once they are ready. Thanks chunlin From: Lisle Mose ***@***.*** Sent: Tuesday, March 13, 2018 9:47 AM To: genome-in-a-bottle/giab_latest_release < ***@***.***> Cc: Subscribed ***@***.***> Subject: [genome-in-a-bottle/giab_latest_release] High Confidence SV calls? (#6) Is there any set of high confidence structural variant calls available? I do not see any under the giab_latest_release directory. — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub< #6>, or mute the thread< https://github.com/notifications/unsubscribe-auth/AM6o1qHgeT8ENL35b03TQtemp0WcabD9ks5td82-gaJpZM4SoteJ>. — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#6 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/ACU6drmXElAd3fQlb0v3VtdJsQBtGfnqks5td9T_gaJpZM4SoteJ> .

[mozack]

Thanks, I'll take a look.

[eroller]

Where can I find SV calls for NA12878?

[chunlinxiao]

Hi Eric, GIAB consortium does not have high-confidence SV calls for NA12878 yet at this moment. Thanks chunlin From: Eric Roller <[email protected]> Sent: Wednesday, January 02, 2019 3:01 PM To: genome-in-a-bottle/giab_latest_release <[email protected]> Cc: Xiao, Chunlin (NIH/NLM/NCBI) [E] <[email protected]>; Comment <[email protected]> Subject: Re: [genome-in-a-bottle/giab_latest_release] High Confidence SV calls? (#6) Where can I find SV calls for NA12878? — You are receiving this because you commented. Reply to this email directly, view it on GitHub<#6 (comment)>, or mute the thread<https://github.com/notifications/unsubscribe-auth/AM6o1p8n3c4SGbAlfFOHEyoUHlmyn-18ks5u_Q__gaJpZM4SoteJ>.