Grinder (original) (raw)
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
License
GNU General Public License version 2.0 (GPLv2)
User Ratings
5.0 out of 5 stars
★★★★★
★★★★
★★★
★★
★
ease 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 0 / 5
features 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 0 / 5
design 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 0 / 5
support 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 0 / 5
Additional Project Details
Intended Audience
Science/Research
User Interface
Console/Terminal
Programming Language
Related Categories
2008-11-03