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CAR: Reconstructing Contiguous Regions of an Ancestral Genome
...erved adjacencies in modern species. We combine the results from this method with data from chromosome painting experiments to produce a map of an early mammalian genome that account...2559 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
...sequences to generate the final unitig sequences. Thus the per-base error rate is similar to the raw input reads. So far miniasm is in early development stage. It has onl...2365 days ago
3d-dna: 3D de novo assembly (3D DNA) pipeline
This code is designed to enable anyone to reproduce the Hs2-HiC and the AaegL4 genomes reported in: Dudchenko et al., De novo assembly of the Aedes aegypti genome...2334 days ago
mojolicious: a next generation web framework for the Perl programming language.
Back in the early days of the web, many people learned Perl because of a wonderful Perl library called CGI. It was simple enough to get started without knowing much abo...2319 days ago
HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution
Software accompanying "HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution" Preprint: http://biorxiv.org/content/early/2016/08/01/062117 Paper: http://ge...2293 days ago
Pacasus: Correction of palindromes in long reads from PacBio and Nanopore
...urce folder: https://github.com/swarris/Pacasus/blob/master/vib2017.pdf. The prepint version is found on http://www.biorxiv.org/content/early/2017/08/09/173872 It uses th...2016 days ago
RaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
Alonge M, Soyk S, Ramakrishnan S, Wang X, Goodwin S, Sedlazeck FJ, Lippman ZB, Schatz MC: Fast and accurate reference-guided scaffolding of draft genomes. bi...1859 days ago