MUMmer4: A fast and versatile genome alignment system
MUMmer4, a substantially improved version of MUMmer that addresses genome size c...ences. With a theoretical limit on the input size of 141Tbp, MUMmer4 can now work with input sequences of any biologically...2335 days ago
Circoletto: visualizing sequence similarity with Circos
Circoletto, an online visualization tool based on Circos, which provides a fast, aesthetically pleasing and infor...n PERL) freely available at http://bat.ina.certh.gr/tools/circoletto/ Contact:ndarz@cer...2329 days ago
SciLifeLab tutorial for bioinformatics analysis !
SciLifeLab is a national center for molecular biosciences with focus on health and environmental research. Courses Old courses (2012-2014) Metagenomics Workshop 2015 No...2262 days ago
ALPACA: A hybrid strategy for assembly of genomic DNA shotgun sequencing reads.
ALPACA requires Celera Assembler 8.3 or later. It is recommended to build Celera Assembler from source. (Why? The pre-built binaries CA_8.3rc1 and CA8.3rc2 will work for any large data set. Detail paper at https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-017-3927-82249 days ago
MITObim - mitochondrial baiting and iterative mapping
This document contains instructions on how to use the MITObim p...e. Kindly cite the article if you are using MITObim in your work. T...eline was originally developed for Illumina data, but thanks to the...2241 days ago
SEX-DETector: A Probabilistic Approach to Study Sex Chromosomes in Non-Model Organisms
SEX-DETector is a probabilistic method that relies on RNAseq data from a cross (parents and...nes located on the non recombining part of sex chromosomes). How does SEX-DETector work? SEX-DETect...2218 days ago
MCMCTREE: a phylogenetic program for Bayesian estimation of species divergence times
MCMCTREE is a phylogenetic program for Bayesian estimation of species divergence times using soft fossil constraints under various molecular clock m...2216 days ago
HiGlass: a tool for exploring genomic contact matrices and tracks.
HiGlass is a tool for exploring genomic contact matrices and tracks. Please take a look at the examples and documentation...description of the ways that it can be configured to explore and compare contact matrices....2207 days ago
LACHESIS: Genome Assembly with Hi-C-based Contact Probability Maps (LACHESIS)
LACHESIS is method that exploits contact probability map data (e.g. from Hi-C) for chromosome-scale de novo genome assembly. Further information about LACHESIS, inc...2235 days ago
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