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Pull requests: samtools/hts-specs

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Pull requests list

Add subtitles noting VCFv4.[1-4].pdf have been superseded by later versions vcf
#782 opened Aug 8, 2024 by jmarshall Loading…
@d-cameron
1
fix discrepancy of empty bed files bed
#775 opened Jun 28, 2024 by kloetzl Loading…
5
Add ID subfield to VCF v4.3 test file's structured header vcf
#773 opened Jun 18, 2024 by jmarshall Loading…
1
@d-cameron
1
Add a LICENSE.md file for the various test files.
#768 opened Apr 22, 2024 by jkbonfield Loading…
@jmarshall @d-cameron
5
Add SAM recommendation of MAPQ=0 for unmapped reads sam
#753 opened Jan 29, 2024 by jkbonfield Loading…
1
@jmarshall
6
Recommend 1bp SEQ with QUAL="*" as quality-unavailable. sam
#752 opened Jan 29, 2024 by jkbonfield Loading…
@jmarshall
1
Adding AEAD support as new encryption method crypt4gh
#736 opened Jul 22, 2023 by silverdaz Loading…
5
Allow for UTF-8 field values in header regular expression sam
#726 opened May 12, 2023 by jmarshall Loading…
1
@jkbonfield
7
Document the ambiguity of 1-base long seq with QUAL * sam
#724 opened May 2, 2023 by jkbonfield Loading…
1
@jmarshall
1
Fix typos (refget) refget
#700 opened Feb 2, 2023 by jkbonfield Loading…
SAM: add a sentence on case-insensitivity of RG PL (PR #684) sam
#684 opened Nov 9, 2022 by jkbonfield Loading…
1
@jmarshall
7
Remove "top strand" phrase from MM tag description. sam sam-tags
#668 opened Aug 31, 2022 by jkbonfield Loading…
1
@jmarshall
1
Define optional HTTP 426 response for requests for index files htsget
#665 opened Aug 3, 2022 by jmarshall Loading…
Clarify MI for identifying source molecule strand sam sam-tags
#633 opened Mar 2, 2022 by nh13 Loading…
@jmarshall
15
Clarification of empty vector representation vcf
#617 opened Dec 16, 2021 by pd3 Loading…
@d-cameron
3
Phred scale clarifications sam vcf
#579 opened Jun 16, 2021 by jkbonfield Loading…
1
19
strawman attempt at adding array of booleans vcf
#537 opened Dec 17, 2020 by yfarjoun Loading…
2 tasks
2
document convention for "QC squeezing" in population VCF vcf
#527 opened Sep 7, 2020 by mlin Loading…
1
Cramv4 cram
#502 opened May 28, 2020 by jkbonfield Loading…
2
htsget: add samples query parameter, principally to select subset of VCF columns htsget
#430 opened Jul 10, 2019 by mlin Loading…
5
Sample ID and filter update vcf
#414 opened May 30, 2019 by yfarjoun Loading… VCF v4.4
8
New section describing familial PEDIGREE headers vcf
#413 opened May 29, 2019 by jmarshall Loading…
13
[DRAFT] Cache control for re-using previously-downloaded headers htsget
#325 opened Jul 12, 2018 by jmarshall • Draft
3
Add splitting BAM index to spec sam
#321 opened Jun 5, 2018 by tomwhite Loading…
44
Clarify Number=G tags in INFO as discussed in #272 vcf
#309 opened May 4, 2018 by pd3 Loading…
1
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