grinder
Versatile omics shotgun and amplicon sequencing read simulator
Command lineScience
Not tested on a device yet. What that means
Commands in the package
grinderaverage_genome_sizechange_paired_read_orientation
About grinder
From Debian's package description
Grinder is a versatile program to create random shotgun and amplicon sequence libraries based on DNA, RNA or proteic reference sequences provided in a FASTA file.
Grinder can produce genomic, metagenomic, transcriptomic, metatranscriptomic, proteomic, metaproteomic shotgun and amplicon datasets from current sequencing technologies such as Sanger, 454, Illumina. These simulated datasets can be used to test the accuracy of bioinformatic tools under specific hypothesis, e.g. with or without sequencing errors, or with low or high community diversity. Grinder may also be used to help decide between alternative sequencing methods for a sequence-based project, e.g. should the library be paired-end or not, how many reads should be sequenced.
From Debian's description of the grinder package, under that package's license.
Dependencies
Depends on
perllibbio-perl-perllibgetopt-euclid-perllibmath-random-mt-perl
Related apps
- gbrowseGMOD Generic Genome BrowserCommand line
- quantum-espressoElectronic-Structure and Ab-Initio Molecular Dynamics SuiteCommand line
- hisat2graph-based alignment of short nucleotide reads to many genomesCommand line
- ismrmrd-toolscommand-line tools for ISMRMRDCommand line
- cutadaptClean biological sequences from high-throughput sequencing readsCommand line
- staden-io-lib-utilsprograms for manipulating DNA sequencing filesCommand line
Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the grinder package, under that package's license.
- Description: Debian's description of the grinder package, under that package's license.
- Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
- Popularity: Debian Popularity Contest counts.
More in About the catalog.