[ Källkod: parsnp ]
Paket: parsnp (2.1.3+dfsg-1 och andra)
Länkar för parsnp
Debianresurser:
Hämta källkodspaketet parsnp:
Ansvariga:
Externa resurser:
- Hemsida [harvest.readthedocs.org]
Liknande paket:
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.
Andra paket besläktade med parsnp
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- dep: fasttree
- phylogenetic trees from alignments of nucleotide or protein sequences
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- dep: harvest-tools
- archiving and postprocessing for reference-compressed genomic multi-alignments
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- dep: libc6 (>= 2.38) [ej alpha, ia64, loong64, sh4]
- GNU C-bibliotek: Delade bibliotek
också ett virtuellt paket som tillhandahålls av libc6-udeb
- dep: libc6 (>= 2.40) [loong64, sh4]
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- dep: libc6.1 (>= 2.37) [ia64]
- GNU C-bibliotek: Delade bibliotek
också ett virtuellt paket som tillhandahålls av libc6.1-udeb
- dep: libc6.1 (>= 2.38) [alpha]
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- dep: libgcc-s1 (>= 3.0) [amd64, arm64, i386, loong64, mips64el, ppc64, ppc64el, s390x, x32]
- GCC stödbibliotek
- dep: libgcc-s1 (>= 3.4) [alpha, riscv64, sh4, sparc64]
- dep: libgcc-s1 (>= 3.5) [armel, armhf]
- dep: libgcc-s1 (>= 4.2) [ia64]
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- dep: libgcc-s2 (>= 4.2.1) [m68k]
- GCC stödbibliotek
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- dep: libgcc-s4 (>= 4.1.1) [hppa]
- GCC stödbibliotek
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- dep: libgomp1 (>= 6)
- GCC OpenMP (GOMP) support library
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- dep: libmuscle1 (>= 3.7+4565)
- multiple alignment library for protein sequences
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- dep: libstdc++6 (>= 13.1) [ia64, m68k]
- GNU standardbibliotek v3 för C++
- dep: libstdc++6 (>= 14) [ej ia64, m68k]
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- dep: libunwind8 [ia64]
- library to determine the call-chain of a program - runtime
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- dep: mummer
- Efficient sequence alignment of full genomes
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- dep: phipack
- PHI test and other tests of recombination
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- dep: python3
- interactive high-level object-oriented language (default python3 version)
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- dep: python3-biopython
- Python3 library for bioinformatics
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- dep: python3-numpy
- Python library for numerical computations (Python 3)
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- dep: python3-pyspoa
- Python bindings to spoa
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- dep: python3-tqdm
- fast, extensible progress bar for Python 3 and CLI tool
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- dep: raxml
- Randomized Axelerated Maximum Likelihood of phylogenetic trees
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- dep: time
- GNU time program for measuring CPU resource usage
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- rec: python3-dendropy
- DendroPy Phylogenetic Computing Library (Python 3)
Hämta parsnp
| Arkitektur | Version | Paketstorlek | Installerad storlek | Filer |
|---|---|---|---|---|
| alpha (inofficiell anpassning) | 2.1.3+dfsg-1 | 210,7 kbyte | 2.012,0 kbyte | [filförteckning] |
| amd64 | 2.1.3+dfsg-1 | 209,3 kbyte | 1.959,0 kbyte | [filförteckning] |
| arm64 | 2.1.3+dfsg-1 | 196,0 kbyte | 1.947,0 kbyte | [filförteckning] |
| armel | 2.1.3+dfsg-1 | 190,5 kbyte | 1.946,0 kbyte | [filförteckning] |
| armhf | 2.1.3+dfsg-1 | 187,1 kbyte | 1.882,0 kbyte | [filförteckning] |
| hppa (inofficiell anpassning) | 2.1.3+dfsg-1 | 203,5 kbyte | 1.916,0 kbyte | [filförteckning] |
| i386 | 2.1.3+dfsg-1 | 205,7 kbyte | 1.950,0 kbyte | [filförteckning] |
| ia64 (inofficiell anpassning) | 2.0.5+dfsg-1 | 256,9 kbyte | 2.246,0 kbyte | [filförteckning] |
| loong64 (inofficiell anpassning) | 2.1.3+dfsg-1 | 203,3 kbyte | 1.947,0 kbyte | [filförteckning] |
| m68k (inofficiell anpassning) | 2.1.3+dfsg-1 | 191,4 kbyte | 1.930,0 kbyte | [filförteckning] |
| mips64el | 2.1.3+dfsg-1 | 205,3 kbyte | 2.020,0 kbyte | [filförteckning] |
| ppc64 (inofficiell anpassning) | 2.1.3+dfsg-1 | 212,8 kbyte | 2.011,0 kbyte | [filförteckning] |
| ppc64el | 2.1.3+dfsg-1 | 216,2 kbyte | 2.011,0 kbyte | [filförteckning] |
| riscv64 | 2.1.3+dfsg-1 | 214,3 kbyte | 1.871,0 kbyte | [filförteckning] |
| s390x | 2.1.3+dfsg-1 | 188,2 kbyte | 1.951,0 kbyte | [filförteckning] |
| sh4 (inofficiell anpassning) | 2.1.3+dfsg-1 | 236,4 kbyte | 1.947,0 kbyte | [filförteckning] |
| sparc64 (inofficiell anpassning) | 2.1.3+dfsg-1 | 186,5 kbyte | 2.655,0 kbyte | [filförteckning] |
| x32 (inofficiell anpassning) | 2.1.3+dfsg-1 | 210,0 kbyte | 1.942,0 kbyte | [filförteckning] |