43 releases (17 breaking)

new 0.20.2 Jan 20, 2025
0.19.0 Jan 11, 2025
0.16.0 Dec 20, 2024
0.13.0 Nov 29, 2024

#66 in Biology

Download history 2002/week @ 2024-11-17 531/week @ 2024-11-24 474/week @ 2024-12-01 427/week @ 2024-12-08 364/week @ 2024-12-15 85/week @ 2024-12-22 26/week @ 2024-12-29 583/week @ 2025-01-05 369/week @ 2025-01-12

1,092 downloads per month
Used in 3 crates

MIT license

85KB
2K SLoC

requirements

# install samtools

cd samtools-1.x    # and similarly for bcftools and htslib
./configure --prefix=/usr/
make
make install
cargo install mm2

gsmm2 align -q query.fa --target target.fa -p query2target

changelog

0.20.0

  • homodel logic

0.18.1

  • primaryCovlen
  • qOvlpRatio
  • rOvlpRatio

0.18.0

  • gsmm2-aligned-metric.rs
  • align_single_query_to_targets TO (align_single_query_to_targets + hits2records)

0.17.0

  • set_primary_alignment_according_2_align_score -> set_primary_supp_alignment_according_2_align_score

0.11.0

  • np_range & rq_range.
  • discard multiple alignment reads

0.9.0

  • dump qual if the query file is bam or fastq. if query file is fa, the qual will be [255; query_len]

0.6.0

  • if the query file is bam format, it will try to dump np & ch & rq to the result bam

0.5.0

  • if the query file is bam format, it will try to dump np & ch to the result bam

Dependencies

~32–45MB
~736K SLoC