PLAST: A fast, accurate and NGS scalable bank-to-bank sequence similarity search tool
PLAST is a fast, accurate and NGS scalable bank-to-bank sequence similarity search tool p...takes full advantage of recent multi-core personal computers without requiring any additi...small RAM footprint, Ready to be used on desktop compu...2360 days ago
TeachEnG: Teaching Engine for Genomics
TeachEnG (pronounced “teaching”), a Teaching Engine for Genomics, provides educational games to help students and research...2348 days ago
BEAP: Blast Extension and Assembly Program
The Blast Extension and Assembly Program (BEAP) is a computer program that uses a short starting DNA fragment, often a EST or partial gene segment, as "primer", to recursively bla...2168 days ago
MECAT: fast mapping, error correction, and de novo assembly for single-molecule sequencing reads
MECAT is an ultra-fast Mapping, Error Correction and de novo Assembly Tools for single molecula sequencing (SMRT) rea...for effectively de novo assemblying large genomes. For example, on a 32-thread compu...2199 days ago
2195 days ago
DUPCAR: Reconstructing Contiguous Ancestral Regions with Duplications
we propose a heuristic algorithm, called DUPCAR, for reconstructing ancestral genomic orders with duplications. The m...rs by connecting genes into contiguous regions based on predicted adjacencies. Compu...2189 days ago
SOAP2 : Short Oligonucleotide Analysis Package 2
SOAPaligner/soap2 is a member of the SOAP (Short Oligonucleotide Analysis Package). It is an updated version of SOAP...(2way-BWT) are developed by the algorithms research group of the Department of Compu...2187 days ago
JBrowse: Embeddable genome browser built completely with JavaScript and HTML5
JBrowse is a fast, embeddable genome browser built completely with JavaScript and HTML5, with optional run-once data...enomes and deep-coverage sequencing. Quickly open and view data files on your compu...2150 days ago
Snippy: Rapid haploid variant calling and core SNP phylogeny
Snippy finds SNPs between a haploid reference genome and your NGS sequence reads. It will find both substitutions (sn...ns/deletions (indels). It will use as many CPUs as you can give it on a single compu...2038 days ago
FinisherSC:a repeat-aware tool for upgrading de novo assembly using long reads
Here is the command to run the tool: python finisherSC.py destinedFolder mummerPath If you are running on server compu...2098 days ago