fastahack

utility for indexing and sequence extraction from FASTA files

Command lineScience

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Commands in the package

fastahack

About fastahack

From Debian's package description

fastahack is a small application for indexing and extracting sequences and subsequences from FASTA files. The included Fasta.cpp library provides a FASTA reader and indexer that can be embedded into applications which would benefit from directly reading subsequences from FASTA files. The library automatically handles index file generation and use.
Features:
FASTA index (.fai) generation for FASTA files
Sequence extraction
Subsequence extraction
Sequence statistics (currently only entropy is provided)
Sequence and subsequence extraction use fseek64 to provide fastest-possible extraction without RAM-intensive file loading operations. This makes fastahack a useful tool for bioinformaticists who need to quickly extract many subsequences from a reference FASTA sequence.

From Debian's description of the fastahack package, under that package's license.

Dependencies

Depends on

libc6
libdisorder0
libfastahack0
libgcc-s1
libstdc++6

Related apps

seqkitcross-platform and ultrafast toolkit for FASTA/Q file manipulationCommand line
fastaqFASTA and FASTQ file manipulation toolsCommand line
seqtkFast and lightweight tool for processing sequences in the FASTA or FASTQ formatCommand line
hhsuitesensitive protein sequence searching based on HMM-HMM alignmentCommand line
gffreadGFF/GTF format conversions, region filtering, FASTA sequence extractionCommand line
last-aligngenome-scale comparison of biological sequencesCommand line

All Linux science apps

Sources and licenses

Name: the Debian package name.
Summary: Debian's short description of the fastahack package, under that package's license.
Description: Debian's description of the fastahack package, under that package's license.
Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
Popularity: Debian Popularity Contest counts.