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Source: mira
Standards-Version: 4.7.3
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders:
Steffen Moeller <moeller@debian.org>,
Andreas Tille <tille@debian.org>,
Michael R. Crusoe <michael.crusoe@gmail.com>,
Section: science
Build-Depends:
debhelper-compat (= 13),
autoconf-archive,
libbz2-dev,
libexpat1-dev,
libgoogle-perftools-dev [i386 amd64],
flex,
libfl-dev,
xxd,
zlib1g-dev,
libboost-thread-dev,
libboost-regex-dev,
libboost-filesystem-dev,
libboost-iostreams-dev,
Build-Depends-Indep:
docbook-xsl,
dblatex,
Vcs-Browser: https://salsa.debian.org/med-team/mira
Vcs-Git: https://salsa.debian.org/med-team/mira.git
Homepage: https://sourceforge.net/p/mira-assembler/wiki/Home/
Rules-Requires-Root: no
Package: mira-assembler
Architecture: any
Depends:
${shlibs:Depends},
${misc:Depends},
Recommends:
mira-rfam-12s-rrna,
Suggests:
mira-doc,
# mira-examples,
Description: Whole Genome Shotgun and EST Sequence Assembler
The mira genome fragment assembler is a specialised assembler for
sequencing projects classified as 'hard' due to high number of similar
repeats. For expressed sequence tags (ESTs) transcripts, miraEST is
specialised on reconstructing pristine mRNA transcripts while
detecting and classifying single nucleotide polymorphisms (SNP)
occurring in different variations thereof.
.
The assembler is routinely used for such various tasks as mutation
detection in different cell types, similarity analysis of transcripts
between organisms, and pristine assembly of sequences from various
sources for oligo design in clinical microarray experiments.
.
The package provides the following executables:
Binaries provided:
* mira: for assembly of genome sequences
* miramem: estimating memory needed to assemble projects.
* mirabait: a "grep" like tool to select reads with kmers up to 256 bases.
* miraconvert: is a tool to convert, extract and sometimes recalculate all
kinds of data related to sequence assembly files.
Package: mira-rfam-12s-rrna
Architecture: all
Depends:
${misc:Depends},
Suggests:
mira-doc,
Pre-Depends:
mira-assembler,
Description: extract of RFAM 12 rRNA database
The mira genome fragment assembler is a specialised assembler for
sequencing projects classified as 'hard' due to high number of similar
repeats.
.
This package contains data to enable MIRA and MIRABAIT to search for rRNA and
rDNA. This data set contains an excerpt of the RFAM database.
Package: mira-doc
Architecture: all
Multi-Arch: foreign
Section: doc
Depends:
${misc:Depends},
Suggests:
mira-assembler,
Description: documentation for the mira assembler
The mira genome fragment assembler is a specialised assembler for
sequencing projects classified as 'hard' due to high number of similar
repeats.
.
This package contains an HTML book introducing to mira.
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