3657 days ago
Kraken: ultrafast metagenomic sequence classification using exact alignments
...latively slow and computationally expensive, forcing researchers to use faster abundance estimation programs...se pair reads at a rate of over 4.1 million reads per minute, 909 times faster than Megablast and 11 times f...2863 days ago
Bioinformatics tools and software
USEARCH >Extreme high-throughput sequence analysis. Orders of magnitude faster than BLAST. MUSCLE >Multiple sequence alignment. Faster and more accurate than CLUSTALW. UPARSE >OTU clustering for...2855 days ago
2807 days ago
2758 days ago
BIMA V3: an aligner customized for mate pair library sequencing
...resence of structural variant breakpoints within reads increases mapping and alignment complexity. We describe an algorithm that is up to 20 times faster and 25% more accurate than po...2693 days ago
2656 days ago
FSA: Fast Statistical Alignment
...ces using a randomized inference algorithm to reduce the computational cost of multiple alignment. This randomized inference can be over ten times faster than a direct approach with l...2640 days ago
2554 days ago
DFAST: a flexible prokaryotic genome annotation pipeline for faster genome publication
We developed a prokaryotic genome annotation pipeline, DFAST, that also supports genome submission to public sequence databases. DFAST was originally started as an on-l...2358 days ago