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Bug#906332: ITP: minimap2 -- versatile pairwise aligner for genomic and spliced nucleotide sequences




Package: wnpp
Severity: wishlist
Owner: Andreas Tille <tille@xxxxxxxxxx>

* Package name    : minimap2
  Version         : 2.12
  Upstream Author : Copyright: © 2017-2018 Broad Institute <hengli@xxxxxxxxxxxxxxxxxx>
* URL             : https://github.com/lh3/minimap2
* License         : MIT
  Programming Lang: C
  Description     : versatile pairwise aligner for genomic and spliced nucleotide sequences
 Minimap2 is a versatile sequence alignment program that aligns DNA or
 mRNA sequences against a large reference database. Typical use cases
 include: (1) mapping PacBio or Oxford Nanopore genomic reads to the
 human genome; (2) finding overlaps between long reads with error rate up
 to ~15%; (3) splice-aware alignment of PacBio Iso-Seq or Nanopore cDNA
 or Direct RNA reads against a reference genome; (4) aligning Illumina
 single- or paired-end reads; (5) assembly-to-assembly alignment; (6) full-
 genome alignment between two closely related species with divergence
 below ~15%.
 .
 For ~10kb noisy reads sequences, minimap2 is tens of times faster than
 mainstream long-read mappers such as BLASR, BWA-MEM, NGMLR and GMAP. It
 is more accurate on simulated long reads and produces biologically
 meaningful alignment ready for downstream analyses. For >100bp Illumina
 short reads, minimap2 is three times as fast as BWA-MEM and Bowtie2, and
 as accurate on simulated data. Detailed evaluations are available from
 the minimap2 paper or the preprint.

Remark: This package is maintained by Debian Med Packaging Team at
   https://salsa.debian.org/med-team/minimap2