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-compat (= 13),
               python3-setuptools,
               dh-python,
               cython3,
               python3-all-dev,
               d-shlibs,
               zlib1g-dev,
               texlive-latex-extra,
               texlive-science,
               texlive-font-utils,
               ghostscript,
               gnuplot,
               libsimde-dev
Standards-Version: 4.6.1
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
Rules-Requires-Root: no

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.

Package: libminimap2-dev
Architecture: any
Section: libdevel
Depends: ${shlibs:Depends},
         ${misc:Depends},
         zlib1g-dev
Description: development headers for libminimap
 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%.
 .
 This package contains the C library headers for using minimap in custom tools,
 along with a static library.

Package: python3-mappy
Architecture: any
Section: python
Depends: ${shlibs:Depends},
         ${python3:Depends},
         ${misc:Depends}
Description: Python3 interface minimap2
 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%.
 .
 This package contains the Python3 interface for using minimap2.
