Mash: fast genome and metagenome distance estimation using MinHash
Mash is normally distributed as a dependency-free binary for Linux or OSX (see https://github.com/marbl/Mash/releases). This source distribution is intended for ot...2380 days ago
SVfinder: Tool for detecting genomic rearrangement form DNA-seq data
SVfinder provides genome-wide detection of structural variants from next generation paired-end sequencing reads.2378 days ago
1427 days ago
NanoSim: nanopore sequence read simulator based on statistical characterization.
...t in the previous step to produce in silico reads for a given reference genome. NanoSim is written in Python and R. The source files and manual are available at the Genome Sciences Centre website: http...2374 days ago
Delta: a new Web-based 3D genome visualization and analysis platform
...and exploring the 3D physical architecture of genomes. Delta takes Hi-C...associating domains and chromatin loops in the genome. It then generates a physical...ization tool which enhances the integration of genome topology/physical structure w...2372 days ago
Meraculous: Haplotype-sensitive Assembly of Highly Heterozygous genomes.
Meraculous is a whole genome assembler for Next Generation Sequencing data geared for large genomes. It is a hybrid k-mer/read-b...rallelization, allowing to assemble human-sized genomes on commodity clusters in und...2371 days ago
MeDuSa: a multi-draft based scaffolder
MeDuSa (Multi-Draft based Scaffolder), an algorithm for genome scaffolding. MeDuSa exploits information obtained from a set of (draft or closed) genomes from related organisms to de...2316 days ago
PASA: Gene Structure Annotation and Analysis
PASA, acronym for Program to Assemble Spliced Alignments, is a eukaryotic genome annotation tool that exploits spliced alignments of expressed transcript sequences to automatically mo...2365 days ago
2365 days ago
Recovery of complete genomes from metagenomes
...ains scripts and tutorials on how to assemble individual microbial genomes from metagenomes, as described in: Genome se...bacteria obtained by differential coverage binning of multiple metagenomes Mads Albertsen, Philip...2365 days ago