Grinder is a versatile open-source bioinformatic tool to create simulated omic shotgun and amplicon sequence libraries for all main sequencing platforms.
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| Website |
https://biogrinder.sourceforge.io |
| Tags |
Bio-Informatics |
| License |
GNU General Public License version 2.0 (GPLv2)
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| Platform |
Linux
Mac
Windows
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| 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
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