[ 源代码： parsnp ]
软件包：parsnp（2.1.3+dfsg-1 以及其他的）
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.
其他与 parsnp 有关的软件包
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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) [除 alpha, ia64, loong64, sh4]
- GNU C 语言运行库：共享库
同时作为一个虚包由这些包填实： libc6-udeb
- dep: libc6 (>= 2.40) [loong64, sh4]
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- dep: libc6.1 (>= 2.37) [ia64]
- GNU C 语言运行库：共享库
同时作为一个虚包由这些包填实： 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 支持库
- 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 支持库
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- dep: libgcc-s4 (>= 4.1.1) [hppa]
- GCC 支持库
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- dep: libgomp1 (>= 6)
- GCC OpenMP（GOMP）支持库
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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 标准 C++ 库，第3版
- dep: libstdc++6 (>= 14) [除 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
- 交互式高级面向对象语言（默认 python3 版本）
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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)
下载 parsnp
| 硬件架构 | 版本 | 软件包大小 | 安装后大小 | 文件 |
|---|---|---|---|---|
| alpha （非官方移植版） | 2.1.3+dfsg-1 | 210.7 kB | 2,012.0 kB | [文件列表] |
| amd64 | 2.1.3+dfsg-1 | 209.3 kB | 1,959.0 kB | [文件列表] |
| arm64 | 2.1.3+dfsg-1 | 196.0 kB | 1,947.0 kB | [文件列表] |
| armel | 2.1.3+dfsg-1 | 190.5 kB | 1,946.0 kB | [文件列表] |
| armhf | 2.1.3+dfsg-1 | 187.1 kB | 1,882.0 kB | [文件列表] |
| hppa （非官方移植版） | 2.1.3+dfsg-1 | 203.5 kB | 1,916.0 kB | [文件列表] |
| i386 | 2.1.3+dfsg-1 | 205.7 kB | 1,950.0 kB | [文件列表] |
| ia64 （非官方移植版） | 2.0.5+dfsg-1 | 256.9 kB | 2,246.0 kB | [文件列表] |
| loong64 （非官方移植版） | 2.1.3+dfsg-1 | 203.3 kB | 1,947.0 kB | [文件列表] |
| m68k （非官方移植版） | 2.1.3+dfsg-1 | 191.4 kB | 1,930.0 kB | [文件列表] |
| mips64el | 2.1.3+dfsg-1 | 205.3 kB | 2,020.0 kB | [文件列表] |
| ppc64 （非官方移植版） | 2.1.3+dfsg-1 | 212.8 kB | 2,011.0 kB | [文件列表] |
| ppc64el | 2.1.3+dfsg-1 | 216.2 kB | 2,011.0 kB | [文件列表] |
| riscv64 | 2.1.3+dfsg-1 | 214.3 kB | 1,871.0 kB | [文件列表] |
| s390x | 2.1.3+dfsg-1 | 188.2 kB | 1,951.0 kB | [文件列表] |
| sh4 （非官方移植版） | 2.1.3+dfsg-1 | 236.4 kB | 1,947.0 kB | [文件列表] |
| sparc64 （非官方移植版） | 2.1.3+dfsg-1 | 186.5 kB | 2,655.0 kB | [文件列表] |
| x32 （非官方移植版） | 2.1.3+dfsg-1 | 210.0 kB | 1,942.0 kB | [文件列表] |