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Paketti: python3-sqt (0.8.0-5 ja muut)

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SeQuencing Tools for biological DNA/RNA high-throughput data

sqt is a collection of command-line tools for working with high-throughput sequencing data. Conceptionally not fixed to use any particular language, many sqt subcommands are currently implemented in Python. For them, a Python package is available with functions for reading and writing FASTA/FASTQ files, computing alignments, quality trimming, etc.

The following tools are offered:

 * sqt-coverage -- Compute per-reference statistics such as coverage
   and GC content
 * sqt-fastqmod -- FASTQ modifications: shorten, subset, reverse
   complement, quality trimming.
 * sqt-fastastats -- Compute N50, min/max length, GC content etc. of
   a FASTA file
 * sqt-qualityguess -- Guess quality encoding of one or more FASTA files.
 * sqt-globalalign -- Compute a global or semiglobal alignment of two strings.
 * sqt-chars -- Count length of the first word given on the command line.
 * sqt-sam-cscq -- Add the CS and CQ tags to a SAM file with colorspace reads.
 * sqt-fastamutate -- Add substitutions and indels to sequences in a
   FASTA file.
 * sqt-fastaextract -- Efficiently extract one or more regions from an
   indexed FASTA file.
 * sqt-translate -- Replace characters in FASTA files (like the 'tr'
 * sqt-sam-fixn -- Replace all non-ACGT characters within reads in a
   SAM file.
 * sqt-sam-insertsize -- Mean and standard deviation of paired-end
   insert sizes.
 * sqt-sam-set-op -- Set operations (union, intersection, ...) on
   SAM/BAM files.
 * sqt-bam-eof -- Check for the End-Of-File marker in compressed
   BAM files.
 * sqt-checkfastqpe -- Check whether two FASTQ files contain correctly
   paired paired-end data.

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Imurointi kaikille saataville arkkitehtuureille
Arkkitehtuuri Versio Paketin koko Koko asennettuna Tiedostot
amd64 0.8.0-5+b1 129.8 kt574.0 kt [tiedostoluettelo]
arm64 0.8.0-5+b1 124.2 kt562.0 kt [tiedostoluettelo]
armel 0.8.0-5+b1 117.9 kt538.0 kt [tiedostoluettelo]
armhf 0.8.0-5+b1 118.5 kt442.0 kt [tiedostoluettelo]
i386 0.8.0-5+b1 128.8 kt578.0 kt [tiedostoluettelo]
mips64el 0.8.0-5+b1 115.3 kt600.0 kt [tiedostoluettelo]
mipsel 0.8.0-5+b1 114.5 kt562.0 kt [tiedostoluettelo]
ppc64el 0.8.0-5+b1 131.0 kt758.0 kt [tiedostoluettelo]