COPE: an accurate k-mer-based pair-end reads connection tool to facilitate genome assembly
...th 98.8% accuracy, which is, respectively, 10 and 2% higher than the recently published tool FLASH. When COPE is applied to real reads for genome assembly, the resulting contigs are fo...2349 days ago
Musket: a multistage k-mer spectrum based corrector
...duces three correction techniques in a multistage workflow. Our performance evaluation results, in terms of correction quality and de novo genome assembly measures, reveal that Musket...2349 days ago
2342 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) diploid genomes remains challenging. As a result,...2334 days ago
Meraculous: Haplotype-sensitive Assembly of Highly Heterozygous genomes.
...explicit error correction step which we argue to be redundant with the assembly process. Meraculous achieves...arent and portable model of job control and monitoring where different assembly stages can be executed and re...2334 days ago
Ra assembler - a de novo DNA assembler for third generation sequencing data
...several separate components that used to be run individually.This project aims to ease the usage of Ra by integrating it into a complete de novo assembly tool. Unlike other state-of-...2327 days ago
CAMSA :: a tool for Comparative Analysis and Merging of Scaffold Assemblies
...le existing formats via built-in converters creates an extensive report with several comparative quality metrics (both on assembly level and on the level of individual assembly points) constructs a merged...2326 days ago
Rectangle Graph for Repeat Resolution in Genome Assembly
...mat as SPAdes files. For more details see: Nikolay Vyahhi, Son K. Pham, Pavel Pevzner. From de Bruijn Graphs to Rectangle Graphs for Genome Assembly, Lecture Notes in Bioinf...2326 days ago
3d-dna: 3D de novo assembly (3D DNA) pipeline
...HiC and the AaegL4 genomes reported in: Dudchenko et al., De novo assembly of the Aedes aegypti genome u...some of the terminology used below is outlined in Figure S2. The assembly procedure is described in det...2326 days ago
ECTOOLS: Long Read Correction and other Correction tools
...riptsare at the bottom of this file. Contact: gurtowsk@cshl.edu In short, the correction algorithm takes as input the unitigs from a short read assembly and uses them to correct long...2319 days ago