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provide the user with fine-grained control over read filters #260

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akiezun opened this issue Mar 7, 2015 · 5 comments
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provide the user with fine-grained control over read filters #260

akiezun opened this issue Mar 7, 2015 · 5 comments
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@akiezun
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akiezun commented Mar 7, 2015

provide the user with fine-grained control over read filters (should wait until after we see what read filters end up looking like in the dataflow world)
@akiezun akiezun mentioned this issue Mar 7, 2015
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@akiezun
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akiezun commented Apr 20, 2015

closing. will reopen if this is actually a requirement

@akiezun akiezun closed this as completed Apr 20, 2015
@vdauwera
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Depends what fine grained control means. User should not have control over default filters that are considered essential by walker authors. User should have control over optional filters that provide eg convenience functions for selecting subsets of data (eg read group based, cigar based, etc).

@akiezun
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akiezun commented Apr 20, 2015

yes, this ticked was about the former. feel free to enter another ticket for the latter (with a usecase)

@vdauwera
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Ok-- off the top of your head, do you already have/plan porting existing read filters?

@akiezun
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akiezun commented Apr 20, 2015

AFAIK all relevant ones are ported ( #380 being reviewed by @vruano as we speak)

schaluva added a commit that referenced this issue Apr 2, 2021
@schaluva
#260 filter out AS_QD, SOR, FS from cohort extract VCF (#7173)
38675fd 
* filter out AS_QD, SOR, FS from cohort extract VCF

* change files to original and expected

* delete commented out lines
mmorgantaylor pushed a commit that referenced this issue Apr 6, 2021
@schaluva @mmorgantaylor
#260 filter out AS_QD, SOR, FS from cohort extract VCF (#7173)
c30dd54 
* filter out AS_QD, SOR, FS from cohort extract VCF

* change files to original and expected

* delete commented out lines
lucidtronix pushed a commit that referenced this issue Jul 27, 2021
@StevenSong
fixes in tensor generator (#327)
9c3e6d7 
* #260 #324 #326

* get stats q

* variable names
This was referenced Mar 17, 2023
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@akiezun @vdauwera