[ 原始碼: ea-utils ]
套件:ea-utils(1.1.2+dfsg-9 以及其他的)
command-line tools for processing biological sequencing data
Ea-utils provides a set of command-line tools for processing biological sequencing data, barcode demultiplexing, adapter trimming, etc.
Primarily written to support an Illumina based pipeline - but should work with any FASTQs.
Main Tools are:
* fastq-mcfScans a sequence file for adapters, and, based on a log-scaled threshold, determines a set of clipping parameters and performs clipping. Also does skewing detection and quality filtering.
* fastq-multxDemultiplexes a fastq. Capable of auto-determining barcode id's based on a master set fields. Keeps multiple reads in-sync during demultiplexing. Can verify that the reads are in-sync as well, and fail if they're not.
* fastq-joinSimilar to audy's stitch program, but in C, more efficient and supports some automatic benchmarking and tuning. It uses the same "squared distance for anchored alignment" as other tools.
* varcallTakes a pileup and calculates variants in a more easily parameterized manner than some other tools.
其他與 ea-utils 有關的套件
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- dep: libc6 (>= 2.34)
- 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, i386, mipsel]
- GCC 支援函式庫
- dep: libgcc-s1 (>= 3.5) [armel, armhf]
- dep: libgcc-s1 (>= 4.2) [i386, mipsel]
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- dep: libgsl27 (>= 2.7.1)
- GNU Scientific Library (GSL) -- library package
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- dep: libstdc++6 (>= 11)
- GNU Standard C++ Library v3
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- dep: r-base-core
- GNU R core of statistical computation and graphics system
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- dep: r-cran-formula
- GNU R package for extended model formulas
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- dep: r-cran-getopt
- GNU R package providing command-line parsing functionality
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- dep: r-cran-ggplot2
- implementation of the Grammar of Graphics
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- dep: r-cran-hmisc
- GNU R miscellaneous functions by Frank Harrell
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- dep: r-cran-lattice
- GNU R package for 'Trellis' graphics
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- dep: r-cran-survival
- GNU R package for survival analysis
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- dep: zlib1g (>= 1:1.2.3.3)
- 壓縮函式庫 - 跑程式時用(runtime)
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- rec: med-config (>= 2.1)
- Debian Med general config package
下載 ea-utils
硬體架構 | 版本 | 套件大小 | 安裝後大小 | 檔案 |
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amd64 | 1.1.2+dfsg-9+b2 | 230。6 kB | 747。0 kB | [檔案列表] |
arm64 | 1.1.2+dfsg-9+b2 | 208。9 kB | 1,003。0 kB | [檔案列表] |
armel | 1.1.2+dfsg-9+b2 | 208。8 kB | 996。0 kB | [檔案列表] |
armhf | 1.1.2+dfsg-9+b2 | 205。7 kB | 740。0 kB | [檔案列表] |
i386 | 1.1.2+dfsg-9+b2 | 242。5 kB | 760。0 kB | [檔案列表] |
mips64el | 1.1.2+dfsg-9+b2 | 229。8 kB | 1,094。0 kB | [檔案列表] |
mipsel | 1.1.2+dfsg-9+b2 | 233。5 kB | 1,084。0 kB | [檔案列表] |
ppc64el | 1.1.2+dfsg-9+b2 | 241。5 kB | 1,323。0 kB | [檔案列表] |
s390x | 1.1.2+dfsg-9+b2 | 212。0 kB | 747。0 kB | [檔案列表] |