fastx_toolkit-0.0.14-alt2_23.x86_64.rpm


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Description

fastx_toolkit - Tools to process short-reads FASTA/FASTQ files

Property Value
Distribution ALT Linux Sisyphus
Repository Autoimports x86_64
Package filename fastx_toolkit-0.0.14-alt2_23.x86_64.rpm
Package name fastx_toolkit
Package version 0.0.14
Package release alt2_23
Package architecture x86_64
Package type rpm
Category Engineering
Homepage -
License -
Maintainer -
Download size 456.28 KB
Installed size 456.28 KB
The FASTX-Toolkit is a collection of command line tools for
Short-Reads FASTA/FASTQ files preprocessing.
Next-Generation sequencing machines usually produce FASTA or FASTQ
files, containing multiple short-reads sequences (possibly with
quality information).
The main processing of such FASTA/FASTQ files is mapping (aka
aligning) the sequences to reference genomes or other databases using
specialized programs. Example of such mapping programs are: Blat,
SHRiMP, LastZ, MAQ and many many others.
However, It is sometimes more productive to preprocess the FASTA/FASTQ
files before mapping the sequences to the genome - manipulating the
sequences to produce better mapping results.
The FASTX-Toolkit tools perform some of these preprocessing tasks.

Alternatives

Package Version Architecture Repository
fastx_toolkit-0.0.14-alt2_23.i586.rpm 0.0.14 i586 Autoimports
fastx_toolkit - - -

Requires

Name Value
/lib64/ld-linux-x86-64.so.2 -
/usr/bin/env -
/usr/bin/gnuplot -
/usr/bin/perl -
bash -
coreutils -
gawk -
libc.so.6(GLIBC_2.14)(64bit) -
libc.so.6(GLIBC_2.2.5)(64bit) -
libc.so.6(GLIBC_2.3.4)(64bit) -
libc.so.6(GLIBC_2.4)(64bit) -
libgcc_s.so.1(GCC_3.0)(64bit) -
libgtextutils-0.7.so.0()(64bit) -
libstdc++.so.6(CXXABI_1.3)(64bit) -
libstdc++.so.6(CXXABI_1.3.5)(64bit) -
libstdc++.so.6(GLIBCXX_3.4)(64bit) -
libstdc++.so.6(GLIBCXX_3.4.11)(64bit) -
libstdc++.so.6(GLIBCXX_3.4.15)(64bit) -
libstdc++.so.6(GLIBCXX_3.4.18)(64bit) -
libstdc++.so.6(GLIBCXX_3.4.20)(64bit) -
libstdc++.so.6(GLIBCXX_3.4.21)(64bit) -
libstdc++.so.6(GLIBCXX_3.4.9)(64bit) -
perl(Data/Dumper.pm) -
perl(GD/Graph/bars.pm) -
perl(Getopt/Long.pm) -
perl(IO/Handle.pm) -
perl(PerlIO.pm) -
perl(PerlIO/gzip.pm) -
perl-GD-Graph -
perl-PerlIO-gzip -
rpmlib(PayloadIsLzma) -
rpmlib(SetVersions) -
rtld(GNU_HASH) -
sed -

Provides

Name Value
fastx_toolkit = 0.0.14-alt2_23

Download

Type URL
Mirror ftp.altlinux.org
Binary Package fastx_toolkit-0.0.14-alt2_23.x86_64.rpm
Source Package fastx_toolkit-0.0.14-alt2_23.src.rpm

Install Howto

  1. Add the following line to /etc/apt/sources.list:
    
    rpm [Sisyphus] http://ftp.altlinux.org/pub/distributions/ALTLinux/autoimports/Sisyphus x86_64 autoimports
    rpm [Sisyphus] http://ftp.altlinux.org/pub/distributions/ALTLinux/autoimports/Sisyphus noarch autoimports
    
  2. Update the package index:
    # sudo apt-get update
  3. Install fastx_toolkit rpm package:
    # sudo apt-get install fastx_toolkit

Files

Path
/usr/bin/fasta_clipping_histogram.pl
/usr/bin/fasta_formatter
/usr/bin/fasta_nucleotide_changer
/usr/bin/fastq_masker
/usr/bin/fastq_quality_boxplot_graph.sh
/usr/bin/fastq_quality_converter
/usr/bin/fastq_quality_filter
/usr/bin/fastq_quality_trimmer
/usr/bin/fastq_to_fasta
/usr/bin/fastx_artifacts_filter
/usr/bin/fastx_barcode_splitter.pl
/usr/bin/fastx_clipper
/usr/bin/fastx_collapser
/usr/bin/fastx_nucleotide_distribution_graph.sh
/usr/bin/fastx_nucleotide_distribution_line_graph.sh
/usr/bin/fastx_quality_stats
/usr/bin/fastx_renamer
/usr/bin/fastx_reverse_complement
/usr/bin/fastx_trimmer
/usr/bin/fastx_uncollapser
/usr/share/doc/fastx_toolkit-0.0.14/AUTHORS
/usr/share/doc/fastx_toolkit-0.0.14/COPYING
/usr/share/doc/fastx_toolkit-0.0.14/NEWS
/usr/share/doc/fastx_toolkit-0.0.14/README
/usr/share/doc/fastx_toolkit-0.0.14/THANKS

See Also

Package Description
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fatrace-0.13-alt1_2.x86_64.rpm Reports file access events from all running processes
fb2png-0.1-alt1_21.git85df73c.x86_64.rpm Take screenshots from the framebuffer
fbdesk-1.4.1-alt1_28.x86_64.rpm Icon Manager for Fluxbox
fbpanel-7.0-alt1_5.x86_64.rpm A lightweight X11 desktop panel
fbzx-4.0.0-alt1_3.x86_64.rpm A ZX Spectrum emulator for FrameBuffer
fcitx-anthy-0.2.2-alt1_9.x86_64.rpm Anthy Engine for Fcitx
fcitx-configtool-0.4.10-alt2_2.x86_64.rpm Gtk configuretool for Fcitx
fcitx-hangul-0.3.1-alt1_7.x86_64.rpm Hangul Engine for Fcitx
fcitx-skk-0.1.0-alt1_14.x86_64.rpm Japanese SKK (Simple Kana Kanji) Engine for Fcitx
fcitx-unikey-0.2.7-alt1_6.x86_64.rpm Vietnamese Engine for Fcitx
fcode-utils-1.0.2-alt1_21.svn1354.x86_64.rpm Utilities for dealing with FCode
fcoe-utils-1.0.32-alt1_2.x86_64.rpm Fibre Channel over Ethernet utilities
feff-1.10.1-alt1_1.x86_64.rpm Front-end for FFmpeg
fetchlog-1.4-alt1_16.x86_64.rpm Utility to display new messages of a logfile since last run
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