miniasm: very fast OLC-based de novo assembler for noisy long reads
...d consensus tools, miniasm may also be useful to produce high-quality assemblies. Minimap and miniasm are ult...not have a correction or consensus step, and therefore the resulting assemblies are contiguous (i.e. long) bu...2353 days ago
Bandage: interactive visualization of de novo genome assemblies
...played as highlights in the graph. By displaying connections between contigs, Bandage presents new possibilities for analyzing de novo assemblies that are not possible through...2346 days ago
CAMSA :: a tool for Comparative Analysis and Merging of Scaffold Assemblies
...lysis and Merging of Scaffold Assemblies, distributed both as a standa...atures: works with any number of scaffold assemblies in de-novo non-progressive fa...r a visual comparative analysis of the given assemblies...2322 days ago
Rectangle Graph for Repeat Resolution in Genome Assembly
Ultimate tool for resolving repeats in genome assemblies. Though the specific implementation of the idea of the rectangle graph approach is already included into the current SPAde...2322 days ago
Dot, an interactive viewer for genome-genome comparison
...ntists to visualize genome-genome alignments in order to evaluate new assemblies and perform exploratory compa...er aligner the most commonly used software method for aligning genome assemblies. A quick script called DotPre...2305 days ago
Genome assembly stats plotting
...on (JSON) data structure, allowing toggling between alternative views, and each can be applied to a single or multiple assemblies to allow direct comparison of alternate assemblies. Tabular presentation allows...2260 days ago
ARCS: scaffolding genome drafts with linked reads
ARCS, an application that utilizes the barcoding information contained in linked reads to further organize draft genomes into highly contiguous assemblies. We show how the contiguity of...2253 days ago
Metassembler: merging and optimizing de novo genome assemblies
...mbler combines multiple whole genome de novo assemblies into a combined consensus ass...ly using the best segments of the individual assemblies. Genome assembly projects ty...ind the single best assembly, although those assemblies often have complementary, if...2191 days ago
MIX: Combining multiple assemblies from NGS data
Mix is a tool that combines two or more draft assemblies, without relying on a reference genome and has the goal to reduce contig fragmentation and thus speed-up genome finishing. The p...2191 days ago
CrossMap: a program for convenient conversion of genome coordinates
...version of genome coordinates (or annotation files) between different assemblies (such as Human hg18 (NCBI36)..., VCF. CrossMap is designed to liftover genome coordinates between assemblies. It’s not a program for a...2168 days ago