[ Source: ea-utils ]
Paketti: ea-utils (1.1.2+dfsg-6)
Links for ea-utils
Debian-palvelut:
Imuroi lähdekoodipaketti ea-utils:
Ylläpitäjät:
- Debian Med Packaging Team (Laadunvalvontasivu, Mail Archive)
- Tim Booth (Laadunvalvontasivu)
- Andreas Tille (Laadunvalvontasivu)
External Resources:
- Kotisivu [expressionanalysis.github.io]
Samankaltaisia paketteja:
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.
Muut pakettiin ea-utils liittyvät paketit
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- dep: libc6 (>= 2.29)
- GNU-C-kirjasto: jaetut kirjastot
myös näennäispaketti, jonka toteuttaa libc6-udeb
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- dep: libgcc-s1 (>= 3.0) [ei armhf, i386, mipsel]
- GCC:n apukirjasto
- dep: libgcc-s1 (>= 3.5) [armhf]
- dep: libgcc-s1 (>= 4.2) [i386, mipsel]
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- dep: libgsl25 (>= 2.6)
- GNU Scientific Library (GSL) -- library package
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- dep: libstdc++6 (>= 5.2)
- GNU standardi C++ -kirjasto, versio 3
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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)
- pakkauskirjaston ajonaikaistiedostot
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- rec: med-config (>= 2.1)
- Debian Med general config package
Imuroi ea-utils
Arkkitehtuuri | Paketin koko | Koko asennettuna | Tiedostot |
---|---|---|---|
amd64 | 214.0 kt | 740.0 kt | [tiedostoluettelo] |
arm64 | 149.9 kt | 532.0 kt | [tiedostoluettelo] |
armhf | 146.2 kt | 417.0 kt | [tiedostoluettelo] |
i386 | 226.0 kt | 749.0 kt | [tiedostoluettelo] |
mips64el | 214.6 kt | 853.0 kt | [tiedostoluettelo] |
mipsel | 216.7 kt | 809.0 kt | [tiedostoluettelo] |
ppc64el | 176.9 kt | 916.0 kt | [tiedostoluettelo] |
s390x | 151.2 kt | 580.0 kt | [tiedostoluettelo] |