KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies
KAT is a suite of tools that analyse jellyfish hashes or sequence files (fasta or fastq...tool. Typically this is used to compare two K-mer hashes produced by different NGS reads. profile: Creates a K-...1988 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 as you can give...2031 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...2031 days ago
2005 days ago
SIMBA: a Genome Assembly Project Management System
SIMBA, SImple Manager for Bacterial Assemblies, is a Web interface for managing assembl...ticians to assemble bacterial genomes sequenced with NextGeneration Sequencing (NGS) platforms quickly, easily an...1990 days ago
1978 days ago
ZENBU: a collaborative, omics data integration and interactive visualization system
ZENBU 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...1954 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...1927 days ago
Simka and SimkaMin are comparative metagenomics method dedicated to NGS datasets
Simka is a de novo comparative metagenomics tool. Simka represents each dataset as a k-...ria dot fr Simka and SimkaMin are comparative metagenomics method dedicated to NGS datasets. https://gatb.i...1771 days ago
dnaPipeTE: a pipeline designed to find, annotate and quantify Transposable Elements
dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), i...signed to find, annotate and quantify Transposable Elements in small samples of NGS datasets. It is very useful t...1734 days ago