fulcrumgenomics/fgbio: 4.1.0

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Authors: Nils Homer, Tim Fennell, Clint Valentine, stromka, Michael Hipp, Seth, Yossi Farjoun, John McGuigan, Brad Langhorst, Poshi, Ted Brookings, Zach Norgaard
+10 more Alison Meynert, Chad Young, Charlotte Tolonen, Ikko Eltociear Ashimine, Matt Stone, Nathan Roach, Peter Hickey, Robert N. Azad, Thomas Smith, Tim Dunn
Cited by: 1

Abstract

Summary This is a minor release, with some major under-the-hood changes powered by the upgrade to HTSJDK v5.0.0. This includes: Major performance increases in BAM writing speed on all platforms Minor increase in BAM read performance on x86 platforms, and major increase on aarch64 platforms Major performance improvements to CRAM reading and writing speed Full CRAM 3.1 read and write support Full Change List Update to htsjdk 5.0.0 and bump some other dependencies too by @tfenne in https://github.com/fulcrumgenomics/fgbio/pull/1160 Switch from intel inflater/deflater to libdeflate. by @tfenne in https://github.com/fulcrumgenomics/fgbio/pull/1154 Rename duplex-filter tier locals to best/worst by @nh13 in https://github.com/fulcrumgenomics/fgbio/pull/1156 feat!: allow non-terminal + segment in read structures by @tfenne in https://github.com/fulcrumgenomics/fgbio/pull/1157 fix(codec): avoid MatchError on dovetail FR pairs with asymmetric isFrPair by @nh13 in https://github.com/fulcrumgenomics/fgbio/pull/1155 chore: bump sopt to 1.2.1 and scalatest to 3.2.20 by @tfenne in https://github.com/fulcrumgenomics/fgbio/pull/1161 Full Changelog: https://github.com/fulcrumgenomics/fgbio/compare/4.0.0...4.1.0

Publication details

Journal / source
Zenodo (CERN European Organization for Nuclear Research)
Publication date
20 May 2026