2223 days ago
NGMLR: long-read mapper designed to align PacBio or Oxford Nanopore
CoNvex Gap-cost alignMents for Long Reads (ngmlr) is a long-read mapper designed to sensitiv...alignment algorithm to compute the final alignment. Ngmlr uses a convex gap cost model that penalizes gap exte...2217 days ago
JBrowse: Embeddable genome browser built completely with JavaScript and HTML5
...act, JBrowse has no back-end server code, just tools for formatting data files to be read directly over HTTP. Serve huge datasets from a single low-cost cloud instance. Can run as a...2152 days ago
BLAST options, setting and defaults
... BLASTNBLASTPBLASTXTBLASTNTBLASTXPSIBLAST Gap opening penalty:cost to open a gap [integer] defa...d values are supported default = 5 Gap extension penalty:cost to extend a gap [integer] de...1988 days ago
FastGT: an alignment-free method for calling common SNVs directly from raw sequencing reads
...unique in human genome, counts the frequency of k-mers in sequencing data and predicts the genotype. All this takes less than 1 hour on average low-cost Linux server. http://bioinfo...1574 days ago
1569 days ago
odgi: optimized dynamic genome/graph implementation
...e deltas be small. This allows them to be compressed with a variable length integer representation, resulting in a small in-memory footprint at the cost of packing and unpacking. Th...838 days ago
817 days ago