:: DESCRIPTION
MetaObtainer is a tool for obtaining the specified species from next-generation sequencing short reads.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Pan W, Chen B, Xu Y.
MetaObtainer: A Tool for Obtaining Specified Species from Metagenomic Reads of Next-generation Sequencing.
Interdiscip Sci. 2015 Dec;7(4):405-13. doi: 10.1007/s12539-015-0281-x. Epub 2015 Aug 21. PMID: 26293485.
:: DESCRIPTION
Meraculous is a new algorithm for whole genome assembly of deep paired-end short reads, and apply it to the assembly of a dataset of paired 75-bp Illumina reads derived from the 15.4 megabase genome of the haploid yeast Pichia stipitis.
::DEVELOPER
U.S. Department of Energy Joint Genome Institute
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
PLoS One. 2011;6(8):e23501. doi: 10.1371/journal.pone.0023501. Epub 2011 Aug 18.
Meraculous: de novo genome assembly with short paired-end reads.
Chapman JA, Ho I, Sunkara S, Luo S, Schroth GP, Rokhsar DS.
:: DESCRIPTION
SeqTrimMap is a script for efficient mapping of short reads from high-thoughput sequencing experiments.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2012 Feb 1;28(3):318-23. doi: 10.1093/bioinformatics/btr686
Detection of microRNAs in color space.
Marco A, Griffiths-Jones S.
:: DESCRIPTION
GangSTR is a tool for genome-wide profiling tandem repeats from short reads.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Mousavi N, Shleizer-Burko S, Yanicky R, Gymrek M.
Profiling the genome-wide landscape of tandem repeat expansions.
Nucleic Acids Res. 2019 Sep 5;47(15):e90. doi: 10.1093/nar/gkz501. PMID: 31194863; PMCID: PMC6735967.
:: DESCRIPTION
QuasR is a package for the integrated analysis of high-throughput sequencing data in R, covering all steps from read preprocessing, alignment and quality control to quantification.
::DEVELOPER
Anita Lerch, Dimos Gaiditzis and Michael Stadler <michael.stadler at fmi.ch>
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citaton
QuasR: Quantification and annotation of short reads in R.
Gaidatzis D, Lerch A, Hahne F, Stadler MB.
Bioinformatics. 2014 Nov 21. pii: btu781.
:: DESCRIPTION
Rainbow package consists of several programs used for RAD-seq related clustering and de novo assembly.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2012 Nov 1;28(21):2732-7. doi: 10.1093/bioinformatics/bts482.
Rainbow: an integrated tool for efficient clustering and assembling RAD-seq reads.
Chong Z, Ruan J, Wu CI.
