2624 days ago
GraphMap - A highly sensitive and accurate mapper for long, error-prone reads
...er in a new de novo genome assembly project called Ra (https://github.com/mariokostelac/ra-integrate).Ra attempts to create de novo assemblies from raw nanopore and PacBio reads wit...2576 days ago
2409 days ago
IONiseR: tools for the quality assessment of data produced by Oxford Nanopore’s MinION sequencer
...s that we haven’t thought of, and welcome feedback at mike.smith@embl.de. If you’re not interested in the quality assement of the raw or event level data, and want...2406 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
...sp;unitig sequences. Thus the per-base error rate is similar to the raw input reads. So far miniasm...coverage bacterial genomes, it is possible to generate long contigs from raw PacBio or ONT reads without e...2402 days ago
Computational Genomics: Applied Comparative Genomics
...endent genomic analyses. We will study the leading computational and quantitative approaches for comparing and analyzing genomes starting from raw sequencing data. The course w...2400 days ago
dnaPipeTE: de-novo assembly & annotation Pipeline for Transposable Elements
dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify Transposable Elements in s...2397 days ago
HiC-Pro: an optimized and flexible pipeline for Hi-C data processing
HiC-Pro was designed to process Hi-C data, from raw fastq files (paired-end Illumina data) to the normalized contact maps. Since version 2.7.0, HiC-Pro supports the main Hi-C protoc...2394 days ago
SMASH: An alignment-free tool to find and visualise rearrangements between pairs of DNA sequences
SMASH is a completely alignment-free method to find and visualise rearrangements between pairs of DNA sequences. The detection is based on relative compression,...2378 days ago
AIRVF: a filtering toolbox for precise variant calling in Ion Torrent sequencing
AIRVF that works on flowgram, raw and mapped reads and called variants to reduce artifact-driven false variant calls. Tests on sequencing data of standard reference material showed...2378 days ago