kWIP: The k-mer weighted inner product, a de novo estimator of genetic similarity
The k-mer Weighted Inner Product. This software implements a de novo, alignment free measure of sample genetic dissimilarity which operates upon raw sequencing reads. I...2168 days ago
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KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies
...T: hist: Create an histogram of k-mer occurrences from a sequence f...tput for easy plotting. gcp: K-mer GC Processor. Creates a matri...e of each sequence in a file using K-mers from another sequence file....everal plotting tools to visualise K-mer and compare distributions. Th...1981 days ago
Merqury: reference-free quality and phasing assessment for genome assemblies
Often, genome assembly projects have illumina whole genome sequencing reads available for the assembled individual. The k-mer spectrum of this read set can be used for independently...1429 days ago
FMLRC: a long-read error correction tool using the multi-string Burrows Wheeler Transform
...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-mers in the implicit de Bruijn gr...2095 days ago
SKESA: strategic k-mer extension for scrupulous assemblies
SKESA is a DeBruijn graph-based de-novo assembler designed for assembling reads of microbial genomes sequenced using Illumina. Comparison with SPAdes and MegaHit shows...1999 days ago
Versatile genome assembly evaluation with QUAST-LG
...all): Significant speedup achieved by both use of new fast aligner (minimap2) and the refactoring of alignment analyzing modules New k-mer-based completeness and correc...1961 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-mer spectrum and compute several classical ecological distances between them. Developper: ...1765 days ago
Kevler: Reference-free variant discovery in large eukaryotic genomes
Welcome to kevlar, software for predicting de novo genetic variants without mapping reads to a reference genome! kevlar's k-mer abundance based method calls singl...1559 days ago