[ Source: parsnp ]
Package: parsnp (1.2.1+dfsg-1build1)
Links for parsnp
Trisquel Resources:
Download Source Package parsnp:
- [parsnp_1.2.1+dfsg-1build1.dsc]
- [parsnp_1.2.1+dfsg.orig.tar.xz]
- [parsnp_1.2.1+dfsg-1build1.debian.tar.xz]
Maintainer:
Original Maintainers:
- Debian Med Packaging Team (Mail Archive)
- Andreas Tille
External Resources:
- Homepage [harvest.readthedocs.org]
Similar packages:
rapid core genome multi-alignment
Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can be both draft assemblies and finished genomes, and output includes variant (SNP) calls, core genome phylogeny and multi-alignments. Parsnp leverages contextual information provided by multi-alignments surrounding SNP sites for filtration/cleaning, in addition to existing tools for recombination detection/filtration and phylogenetic reconstruction.
Other Packages Related to parsnp
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- dep: fasttree
- phylogenetic trees from alignments of nucleotide or protein sequences
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- dep: libc6 (>= 2.27)
- GNU C Library: Shared libraries
also a virtual package provided by libc6-udeb
-
- dep: libgcc-s1 (>= 3.0) [amd64]
- GCC support library
- dep: libgcc-s1 (>= 3.5) [armhf]
-
- dep: libgomp1 (>= 6)
- GCC OpenMP (GOMP) support library
-
- dep: libmuscle1 (>= 3.7+4565)
- multiple alignment library for protein sequences
-
- dep: libstdc++6 (>= 5.2)
- GNU Standard C++ Library v3
-
- dep: mummer
- Efficient sequence alignment of full genomes
-
- dep: phipack
- PHI test and other tests of recombination
-
- dep: python3
- interactive high-level object-oriented language (default python3 version)
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- dep: python3-numpy
- Fast array facility to the Python 3 language
-
- rec: python3-dendropy
- DendroPy Phylogenetic Computing Library (Python 3)
Download parsnp
| Architecture | Package Size | Installed Size | Files |
|---|---|---|---|
| amd64 | 190.4 kB | 1987 kB | [list of files] |
| armhf | 164.9 kB | 1846 kB | [list of files] |