This is the Linux app named Grinder whose latest release can be downloaded as Grinder-0.5.4.tar.gz. It can be run online in the free hosting provider OnWorks for workstations.
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Grinder
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DESCRIPTION
Grinder is a versatile open-source bioinformatic tool to create simulated omic shotgun and amplicon sequence libraries for all main sequencing platforms.
Features
- shotgun or amplicon (e.g. 16S rRNA) read libraries
- omics support to generate genomic, transcriptomic, proteomic, metagenomic, metatranscriptomic or metaproteomic datasets
- arbitrary read length distribution and number of reads
- simulation of PCR and sequencing errors (chimeras, point mutations, homopolymers)
- support for paired-end (mate pair) datasets
- specific rank-abundance settings or manually given abundance for each genome, gene or protein
- creation of datasets with a given richness (alpha diversity)
- related datasets can share a variable number of genomes (beta diversity)
- modeling of the bias created by varying genome lengths or gene copy number
- profile mechanism to store preferred options
- available to biologists or power users through multiple interfaces: GUI, CLI and API
Audience
Science/Research
User interface
Console/Terminal
Programming Language
Perl
Categories
This is an application that can also be fetched from https://sourceforge.net/projects/biogrinder/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.
