QuorUM: An Error Corrector for Illumina Reads
Illumina Sequencing data can provide high coverage of a genome by relatively short...ost of the sequencing errors, thus making subsequent use of the data (e.g. for mapping or assembly) easier. Here we...2371 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
Miniasm is a very fast OLC-based de n...reads. It takes all-vs-all read self-mappings (typically by minimap)...T) bacterial data sets. Including the mapping step, it takes about 3 minute...d miniasm are ultrafast tools for (i) mapping and (ii) assembly. Designed f...2353 days ago
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snakepipes: A toolkit based on snakemake and python for analysis of NGS data
snakePipes are flexible and powerful workflows built using snakemake that simplify the analysis of NGS data. DNA-mapping* ChIP-seq* RNA-seq* ATAC-s...1804 days ago
NGMLR: long-read mapper designed to align PacBio or Oxford Nanopore
CoNvex Gap-cost alignMents for Long Reads (ngmlr) is a long-read mapper designed to...structural variations. Ngmlr uses an SV aware k-mer search to find approximate mapping locations for a read and then...2204 days ago
MITObim - mitochondrial baiting and iterative mapping
This document contains instructions on how to use the MITObim pipeline described in Hahn et al. 2013. The full article can be found here. Kindly cite the article i...2191 days ago
HISAT2: a fast and sensitive alignment program for mapping next-generation sequencing reads
HISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (both DNA and RNA) to a population of human genomes (as well as to a single reference genome). Bas...2191 days ago
SEX-DETector: A Probabilistic Approach to Study Sex Chromosomes in Non-Model Organisms
SEX-DETector is a probabilistic method that relies on RN...ncing data can be used for the assembly and for the mapping of the reads. A full document...vailable here. We recommend BWA for mapping of the reads. When the mappi...2168 days ago