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mrFAST: Micro Read Fast Alignment Search Tool
mrFAST is a read mapper that is designed to map short reads to reference genome with a special emphasis on the discovery of structural variation and segmental duplicati...2944 days ago
YASS :: genomic similarity search tool
YASS is a genomic similarity search tool, for nucleic (DNA/RNA) sequences in fasta...extend them to local alignments. This genomic search tool uses multiple transition constrained spaced seeds that enable to search more fuzzy repeats, as non-co...2938 days ago
Painless package development for R
Devtools makes package development a breeze: it works with R’s existing conventions for code structure, adding efficient t...enever you’re writing a significant amount of code....2937 days ago
- This is the andi program for estimating the evolutionary distance between closely related genomes. These distances can be used to rapidly infer phylogenies for big sets...
2927 days ago
SATSUMA : Highly sensitive whole-genome synteny alignments.
...on 24 CPUs. You can find the manual here. Download the latest source code from here. Stable versions ca...to add your own by e-mailing us) is here. If you use Satsuma in your research, please cite: Grabherr, M. G....2927 days ago
CovCal: Coverage / Read Count Calculator
Coverage / Read Count Calculator Calculate how much sequencing you need to hit a target depth of coverage (or vic...Read length (bp), G = Haploid genome size (bp), and N = Number of reads. Source code o...2179 days ago
Linux command line exercises for NGS data processing
The purpose of this tutorial is to introduce students to the frequently used tools for NGS analysis as well as giving experience in writing one-liners. Copy the require...2887 days ago
- Recent studies of the human genome have indicated that regulatory elements (e.g. promoters and enhancers) at dista...Script, utilizing an Apache Tomcat web server and MySQL database and the source code i...
2882 days ago
- Kaiju is a program for the taxonomic classification of metagenomic high...Kaiju translates reads into amino acid sequences, which are then searched in the database using a modified backward search on a memory-efficient impleme...
2882 days ago
- CSBB is a command line based bioinformatics suite to analyze biological data acquired through varied avenues of bi...ming down-stream analysis tasks while eliminating the need to write programming code....
2880 days ago
