PLAST: A fast, accurate and NGS scalable bank-to-bank sequence similarity search tool
...architecture, PLAST takes full advantage of recent multi-core personal computers without requiring any additi...rocessors and uses a small RAM footprint, Ready to be used on desktop computer, cluster, cloud as well as wi...2345 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 blast nu...2153 days ago
MECAT: fast mapping, error correction, and de novo assembly for single-molecule sequencing reads
...e of art of aligners and error correction tools. MECAT can be used for effectively de novo assemblying large genomes. For example, on a 32-thread computer with 2.0 GHz CPU , MECAT take...2184 days ago
2179 days ago
DUPCAR: Reconstructing Contiguous Ancestral Regions with Duplications
.... Then a greedy algorithm is used to reconstruct the ancestral orders by connecting genes into contiguous regions based on predicted adjacencies. Computer simulation was used to valida...2173 days ago
SOAP2 : Short Oligonucleotide Analysis Package 2
...gorithms used.The core algorithms and the indexing data structures (2way-BWT) are developed by the algorithms research group of the Department of Computer Science, the University of Ho...2171 days ago
JBrowse: Embeddable genome browser built completely with JavaScript and HTML5
...genome with unparalleled speed. Scales easily to multi-gigabase genomes and deep-coverage sequencing. Quickly open and view data files on your computer without uploading them to any...2135 days ago
Snippy: Rapid haploid variant calling and core SNP phylogeny
...sequence reads. It will find both substitutions (snps) and insertions/deletions (indels). It will use as many CPUs as you can give it on a single computer (tested to 64 cores). It is d...2023 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 computer and would like to use multiple threads, then the following...2083 days ago
CBS Comparative Microbial Genomics group - BioTools download page
...a customized operating system, based on Xubuntu 10.10, available through the open source Ubuntu project. The system can be installed on a virtual computer, allowing the user to run the...2080 days ago