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Source: minimap2
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>
Section: science
Priority: optional
Build-Depends: debhelper (>= 12~),
d-shlibs,
zlib1g-dev,
texlive-latex-extra,
texlive-science,
texlive-font-utils,
ghostscript,
gnuplot
Standards-Version: 4.3.0
Vcs-Browser: https://salsa.debian.org/med-team/minimap2
Vcs-Git: https://salsa.debian.org/med-team/minimap2.git
Homepage: https://github.com/lh3/minimap2
Package: minimap2
Architecture: any
Depends: ${misc:Depends},
${shlibs:Depends},
zlib1g
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.
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