HapCUT2: robust and accurate haplotype assembly for diverse sequencing technologies
...e on others. With this in mind, HapCUT2 is designed for speed and accuracy across diverse sequencing technologies, including but not limited to: NGS short reads (Illumina HiSeq)...2176 days ago
KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies
...ensity: Creates a density plot from a matrix created with the "comp" tool. Typically this is used to compare two K-mer hashes produced by different NGS reads. profile: Creates a K-...1975 days ago
Snippy: Rapid haploid variant calling and core SNP phylogeny
Snippy finds SNPs between a haploid reference genome and your NGS sequence reads. It will find both substitutions (snps) and insertions/deletions (indels). It will use as many CPUs...2019 days ago
BASE: a practical de novo assembler for large genomes using long NGS reads
new de novo assembler called BASE. It enhances the classic seed-extension approach by indexing the reads efficiently to generate adaptive seeds that have hi...2019 days ago
1993 days ago
SIMBA: a Genome Assembly Project Management System
...rojects of bacterial genomes. SIMBA was created to assist bioinformaticians to assemble bacterial genomes sequenced with NextGeneration Sequencing (NGS) platforms quickly, easily an...1978 days ago
1966 days ago
ZENBU: a collaborative, omics data integration and interactive visualization system
...;is a data integration, data analysis, and visualization system enhanced for RNAseq, ChipSeq, CAGE and other types of next-generation-sequence-tag (NGS) based data. ZENBU allows for...1941 days ago
nQuire: A statistical framework for ploidy estimation using NGS short-read data
nQuire implements a set of commands to estimate ploidy level of individuals from species, where recent polyploidization occurred and intraspecific ploidy variation is...1915 days ago
Simka and SimkaMin are comparative metagenomics method dedicated to NGS datasets
...bsp;Genscale team at Inria. Contact: claire dot lemaitre at inria dot fr Simka and SimkaMin are comparative metagenomics method dedicated to NGS datasets. https://gatb.i...1758 days ago