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Source: libseqlib
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 (>= 11~),
d-shlibs,
pkg-config,
libhts-private-dev,
libcurl4-openssl-dev | libcurl4-dev,
zlib1g-dev,
libfml-dev (>= 0.1-3),
libbwa-dev (>= 0.7.15-3),
libjsoncpp-dev,
libssw-dev
Standards-Version: 4.3.0
Vcs-Browser: https://salsa.debian.org/med-team/libseqlib
Vcs-Git: https://salsa.debian.org/med-team/libseqlib.git
Homepage: https://github.com/walaj/SeqLib
Package: libseqlib1
Architecture: any
Section: libs
Depends: ${shlibs:Depends},
${misc:Depends}
Description: C++ htslib/bwa-mem/fermi interface for interrogating sequence data
C++ API and command line tool that provides a rapid and user-friendly
interface to BAM/SAM/CRAM files, global sequence alignment operations
and sequence assembly. Four C libraries perform core operations in
SeqLib: HTSlib for BAM access, BWA-MEM and BLAT for sequence alignment
and Fermi for error correction and sequence assembly. Benchmarking
indicates that SeqLib has lower CPU and memory requirements than leading
C++ sequence analysis APIs. Minimal SeqLib code can extract, error-correct
and assemble reads from a CRAM file and then align with BWA-MEM.
SeqLib also provides additional capabilities, including chromosome-aware
interval queries and read plotting. Command line tools are available for
performing integrated error correction, micro-assemblies and alignment.
Package: libseqlib-dev
Architecture: any
Section: libdevel
Depends: libseqlib1 (= ${binary:Version}),
${shlibs:Depends},
${misc:Depends},
libhts-dev (>= 1.3.2-3),
libhts-private-dev,
libjsoncpp-dev,
libbwa-dev,
libfml-dev
Description: C++ htslib/bwa-mem/fermi interface for interrogating sequence data (dev)
C++ API and command line tool that provides a rapid and user-friendly
interface to BAM/SAM/CRAM files, global sequence alignment operations
and sequence assembly. Four C libraries perform core operations in
SeqLib: HTSlib for BAM access, BWA-MEM and BLAT for sequence alignment
and Fermi for error correction and sequence assembly. Benchmarking
indicates that SeqLib has lower CPU and memory requirements than leading
C++ sequence analysis APIs. Minimal SeqLib code can extract, error-correct
and assemble reads from a CRAM file and then align with BWA-MEM.
SeqLib also provides additional capabilities, including chromosome-aware
interval queries and read plotting. Command line tools are available for
performing integrated error correction, micro-assemblies and alignment.
.
This package contains the header files and static library.
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