2400 days ago
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 other operating systems or for development. Mash require...2400 days ago
TeachEnG: Teaching Engine for Genomics
TeachEnG (pronounced “teaching”), a Teaching Engine for Genomics, provides educational games to help students and researchers understand key bioinformatics concepts....modules for sequence alignment and phylogenetic tree reconstruction algorithms,...2399 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.2398 days ago
Biological file format tutorial
...ion explains some of the commonly used file formats in bioinformatics. The information provided here is basic and designed to help users to distinguish the differenc...l or other information resources on web for more details. FASTA FASTQ SA...2395 days ago
NanoSim: nanopore sequence read simulator based on statistical characterization.
NanoSim, a fast and scalable read simulator that captures the technology-specific features of ONT data and allows for adjustment...f nanopore sequencing technology. The first step of NanoSim is read cha...tion stage uses the model built in the previous step to produce in sili...2394 days ago
Delta: a new Web-based 3D genome visualization and analysis platform
Delta is an integrative visualization and analysis platform to facilitate visually annotating and exploring the 3D physical architecture of...p;takes Hi-C or ChIA-PET contact matrix as input and predicts the t...cture of the genome. Deltafeatures a highly interactive visual...2392 days ago
dipSPAdes: Assembler for Highly Polymorphic Diploid Genomes.
While the number of sequenced diploid genomes have been steadily increasing in the last few years, assembly of highly polymorphic (HP)...remains challenging. As a result, there is a shortage of tools for a...were proposed in the pre-NGS era and are not well suited for NGS proj...2392 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...t capitalizes on the high accuracy of Illumina sequence by es...ieves high performance with large datasets by utilizing light...d and re-executed separately or in unison on a wide variety o...2392 days ago
SMASH: An alignment-free tool to find and visualise rearrangements between pairs of DNA sequences
...MASH is a completely alignment-free method to find and visualise rearrangements between pairs of...The detection is based on relative compression, namely us...lly 20). The method has been approached with a tool (also calle...ing image, illustrating the information maps between human and...2391 days ago