NextSV: a meta-caller for structural variants from low-coverage long-read sequencing data
...data. NextSV integrates three aligners and three SV callers and generates two integrated call sets (sensitive/stringent) for different analysis purpose. The output of NextSV is in...2162 days ago
AlignQC: A tool for assessing an alignment, and generating reports that are easy to share
...analysis. Generate a reports on sequence alignments for mappability vs read sizes, error patterns, annotations and rarefraction curve analysis. The most basic analysis only requires...2162 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 variants (SNVs) by somatic status and clonality. PureCN is designed for...2160 days ago
mmgenome: Tools for extracting individual genomes from metagneomes
...nome toolbox enables reproducible extraction of individual genomes from metagenomes. It builds on the multi-metagenome concept, but wraps most of the process of extracting...2159 days ago
FMLRC: a long-read error correction tool using the multi-string Burrows Wheeler Transform
...t de Bruijn graph. Each long read is then corrected independently by identifying low frequency k-mers in the long read and replacing them with the closest matching high frequency k-...2159 days ago
NanoPack: visualizing and processing long-read sequencing data
...L3.0 License. The source code can be found at https://github.com/wdecoster/nanopack, together with li...ripts and their documentation. The scripts are compatible with Linux, Mac OS and the MS Windows 10 subsyst...2158 days ago
2154 days ago
Hercules: a profile HMM-based hybrid error correction algorithm for long reads
Choosing whether to use second or third generation sequenc...xtquoterights error profile. The algorithm learns a posterior transition/emission pro...all competing algorithms and highest accuracy when most of the basepairs of a long r...2149 days ago
SimLoRD: A read simulator for third generation sequencing reads
...ird generation sequencing reads and is currently focused on the Pacific Biosciences SMRT error model. Rea...andomly generated with a given GC content. It can consist of several chromosomes, whose structure is respe...2147 days ago
LRCstats: a tool for evaluating long reads correction methods
...d generation sequencing technology such as machines produced by Pacific Biosciences. The reads produced by...than reads produced by next generation sequencing technologies, such as those produced by Illumina. Howeve...2147 days ago