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NEWS draft
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lh3 committed Mar 12, 2024
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Release 2.27-rXXXX (XX March 2024)
----------------------------------

Notable changes to minimap2:

* New feature: added the `lr:hq` preset for accurate long reads at ~1% error
rate. This was suggested by Oxford Nanopore developers (#1127). It is not
clear if this preset also works well for PacBio HiFi reads.

* New feature: added the `map-iclr` preset for Illumina Complete Long Reads
(#1069), provided by Illumina developers. This change also added option `-b`
to specify mismatch penalty for transition mutations.

* New feature: added option `--ds` to generate a new `ds:Z` tag. `ds`
indicates uncertainty in INDEL positions. It is an extension to `cs`. The
`mgutils-es6.js` script in minigraph parses `ds`.

* Bugfix: avoided a NULL pointer dereference (#1154).

* Bugfix: reverted the value of `ms:i` to pre-2.22 versions (#1146). This was
an oversight. See fcd4df2 for details.

Notable changes to paftools.js and mappy:

* New feature: expose `bw_long` to mappy's Aligner class (#1124).

* Bugfix: fixed several compatibility issues with k8 v1.0 (#1161 and #1166).
Subcommands "call", "pbsim2fq" and "mason2fq" were not working with v1.0.

(2.27: XX March 2024, rXXXX)



Release 2.26-r1175 (29 April 2023)
----------------------------------

Fixed the broken Python package. This is the only change.

(2.25: 25 April 2023, r1173)
(2.26: 25 April 2023, r1173)



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