2183 days ago
WhatsHap: fast and accurate read-based phasing
WhatsHap is a software for phasing genomic variants using DNA seq...suitable for long reads, but works also well with short reads....n et al., WhatsHap: fast and accurate read-based phasing) Works well with Illumina, PacBio, Oxford Nanopore and other types of reads It phas...2179 days ago
CGView - Circular Genome Viewer
CGView is a Java package for generating high qu...suitable for the web. Feature information and rendering options are supplie..., complete with labels, a title, legends, and footnotes. In addition to the...see the CGView gallery. http://wishart.biology....2156 days ago
LSC :a long read error correction tool
Getting Started These simple steps will help you integrate LSC into your... for running LSC. Download and set-up the LSC package. Foll...the tutorial to see how LSC works on some example data. Read...Fai Au, Jason Underwood, Lawrence Lee and Wing...2113 days ago
NextSV: a meta-caller for structural variants from low-coverage long-read sequencing data
NextSV, a meta SV caller and a computational pipeline to perform SV calling from low c...d sequencing data. NextSV integrates three aligners and three SV callers and generate...easily perform downstream annotation using ANNOVAR and dise...2108 days ago
PureCN: copy number calling and SNV classification using targeted short read sequencing
This package estimates tumor purity, copy number, and loss of heterozygosity (LOH), and classifies single nucleotide...on and copy number pipelines, and has support for tumor samples...o;PureCN: Copy number calling and SNV classification using targ....” Source Code for Biology...2106 days ago
FMLRC: a long-read error correction tool using the multi-string Burrows Wheeler Transform
FMLRC, or FM-index Long Read Corrector...ng read sequencing using the BWT and FM-index of short-read sequen...ta, FMLRC will build an FM-index and use that as an implicit de Br...requency k-mers in the long read and replacing them with the close...low complexity regions that are computat...2104 days ago
2042 days ago
RopeBWT2: Incremental construction of FM-index for DNA sequences
RopeBWT2 is an tool for constructing the FM-index for a collection of DNA sequences. It works by incrementally inserting one or multiple sequences into an e...s algorithm can be largely considered a mixture of BCR and ...2029 days ago
visNetwork: an R package for network visualization, using vis.js javascript library
visNetwork is an R package for network visualization, using...ttp://visjs.org/). All remarks and bugs are welcome on github :&...p;shiny, R Markdown documents, and RStudio viewer The package...yles, colors, sizes, … works smooth on any modern browser for up to a few thousand node...1953 days ago