This is the Linux app named Grinder to run in Linux online 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.
Download and run online this app named Grinder to run in Linux online with OnWorks for free.
Follow these instructions in order to run this app:
- 1. Downloaded this application in your PC.
- 2. Enter in our file manager https://www.onworks.net/myfiles.php?username=XXXXX with the username that you want.
- 3. Upload this application in such filemanager.
- 4. Start the OnWorks Linux online or Windows online emulator or MACOS online emulator from this website.
- 5. From the OnWorks Linux OS you have just started, goto our file manager https://www.onworks.net/myfiles.php?username=XXXXX with the username that you want.
- 6. Download the application, install it and run it.
Grinder to run in Linux online
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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
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.
