Bandage: interactive visualization of de novo genome assemblies
...Bioinformatics Application for Navigating De novo Assembly Graphs Easily) is a tool for visualizing assembly graphs with connections. User...andage presents new possibilities for analyzing de novo assemblies that are not poss...2482 days ago
COPE: an accurate k-mer-based pair-end reads connection tool to facilitate genome assembly
An efficient tool called Connecting Overlapped Pair-End (COPE) reads, to connect ov...e recently published tool FLASH. When COPE is applied to real reads for genome assembly, the resulting contigs are fo...2481 days ago
Musket: a multistage k-mer spectrum based corrector
...introduces 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...2481 days ago
2474 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) di...2466 days ago
Meraculous: Haplotype-sensitive Assembly of Highly Heterozygous genomes.
Meraculous is a whole genome assembler for Next Generat...ction step which we argue to be redundant with the assembly process. Meraculous achieves...odel of job control and monitoring where different assembly stages can be executed and re...2466 days ago
Ra assembler - a de novo DNA assembler for third generation sequencing data
Integration of the Ra assembler - a de novo DNA assembler for third generation sequencing data developed...ect aims to ease the usage of Ra by integrating it into a complete de novo assembly tool. Unlike other state-of-...2459 days ago
CAMSA :: a tool for Comparative Analysis and Merging of Scaffold Assemblies
...ures: works with any number of scaffold assemblies in de-novo non-progressive fashion allo...ve report with several comparative quality metrics (both on assembly level and on the level of individual assembly points) constructs a merged...2458 days ago
Rectangle Graph for Repeat Resolution in Genome Assembly
Ultimate tool for resolving repeats in genome assemblies. Though the specific impl...Pham, Pavel Pevzner. From de Bruijn Graphs to Rectangle Graphs for Genome Assembly, Lecture Notes in Bioinf...2458 days ago
3d-dna: 3D de novo assembly (3D DNA) pipeline
...s2-HiC and the AaegL4 genomes reported in: Dudchenko et al., De novo assembly of the Aedes aegypti genome u...ome of the terminology used below is outlined in Figure S2. The assembly procedure is described in det...2458 days ago