[ 原始碼： parsnp ]
套件：parsnp（2.1.3+dfsg-1）
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.
其他與 parsnp 有關的套件
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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)
- GNU C 函式庫：共用函式庫
同時作為一個虛擬套件由這些套件填實： libc6-udeb
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- dep: libgcc-s1 (>= 3.0) [除 armel, armhf, riscv64]
- GCC 支援函式庫
- dep: libgcc-s1 (>= 3.4) [riscv64]
- dep: libgcc-s1 (>= 3.5) [armel, armhf]
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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 (>= 14)
- GNU Standard C++ Library v3
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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)
下載 parsnp
| 硬體架構 | 套件大小 | 安裝後大小 | 檔案 |
|---|---|---|---|
| amd64 | 209。3 kB | 1，959。0 kB | [檔案列表] |
| arm64 | 196。0 kB | 1，947。0 kB | [檔案列表] |
| armel | 190。5 kB | 1，946。0 kB | [檔案列表] |
| armhf | 187。1 kB | 1，882。0 kB | [檔案列表] |
| i386 | 205。7 kB | 1，950。0 kB | [檔案列表] |
| mips64el | 205。3 kB | 2，020。0 kB | [檔案列表] |
| ppc64el | 216。2 kB | 2，011。0 kB | [檔案列表] |
| riscv64 | 214。3 kB | 1，871。0 kB | [檔案列表] |
| s390x | 188。2 kB | 1，951。0 kB | [檔案列表] |