Пакет: pyfastx (2.1.0-1)

[ Источник: pyfastx  ]

fast random access to sequences from FASTA/Q file - command

The pyfastx is a lightweight Python C extension that enables users to randomly access to sequences from plain and gzipped FASTA/Q files. This module aims to provide simple APIs for users to extract sequence from FASTA and reads from FASTQ by identifier and index number. The pyfastx will build indexes stored in a sqlite3 database file for random access to avoid consuming excessive amount of memory. In addition, the pyfastx can parse standard (sequence is spread into multiple lines with same length) and nonstandard (sequence is spread into one or more lines with different length) FASTA format.

It features:

 * a single file for the Python extension;
 * lightweight, memory efficient FASTA/Q file parsing;
 * fast random access to sequences from gzipped FASTA/Q file;
 * sequences reading from FASTA file line by line;
 * N50 and L50 calculation of sequences in FASTA file;
 * GC content and nucleotides composition calculation;
 * reverse, complement and antisense sequences extraction;
 * excellent compatibility: support for parsing nonstandard FASTA file;
 * support for FASTQ quality score conversion;
 * a command line interface for splitting FASTA/Q file.

This package provides the command line interface.

Другие пакеты, относящиеся к pyfastx

• dep: python3

  интерактивный высокоуровневый объектно-ориентированный язык (версия python3 по умолчанию)

• dep: python3-pyfastx

  fast random access to sequences from FASTA/Q file - python3 module

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amd64	124,4 Кб	169,0 Кб	[список файлов]
arm64	124,4 Кб	169,0 Кб	[список файлов]
armel	124,4 Кб	169,0 Кб	[список файлов]
armhf	124,4 Кб	169,0 Кб	[список файлов]
i386	124,4 Кб	169,0 Кб	[список файлов]
mips64el	124,4 Кб	169,0 Кб	[список файлов]
ppc64el	124,4 Кб	169,0 Кб	[список файлов]
riscv64	124,4 Кб	169,0 Кб	[список файлов]
s390x	124,4 Кб	169,0 Кб	[список файлов]