dnaPipeTE: de-novo assembly & annotation Pipeline for Transposable Elements
dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify Transposable Elements in small sampl...2339 days ago
Bandage: interactive visualization of de novo genome assemblies
Bandage (a Bioinformatics Application for Navigating De novo Assembly Graphs Easily) is a to...etween contigs, Bandage presents new possibilities for analyzing de novo assemblies that are not...2337 days ago
Musket: a multistage k-mer spectrum based corrector
...oach and introduces three correction techniques in a multistage workflow. Our performance evaluation results, in terms of correction quality and de novo genome assembly measures, rev...2336 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 on...roject aims to ease the usage of Ra by integrating it into a complete de novo assembly tool. Unlike other...2314 days ago
CAMSA :: a tool for Comparative Analysis and Merging of Scaffold Assemblies
...as a standalone software package and as Python library under the MIT license. Main features: works with any number of scaffold assemblies in de-novo non-progressive fashion allo...2313 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 using Hi-C yie...2313 days ago
Genome assembly stats plotting
A de novo genome assembly can be summarised b y a number of metrics, including: Overall assembly length Number of scaffolds/contigs Length of longest scaffo...2252 days ago
SciLifeLab tutorial for bioinformatics analysis !
...psala2018 February - Uppsala Introduction to Genome Annotation 2015 April - Uppsala2016 April - Uppsala2017 April - Uppsala2018 May - Uppsala De Novo Genome Assembly 2016 Novembe...2204 days ago
AlignGraph: algorithm for secondary de novo genome assembly guided by closely related references
AlignGraph is a software that extends and joins contigs or scaffolds by reassembling them with help provided by a reference genome of a closely related organism. Usin...2203 days ago
Flye: Fast and accurate de novo assembler for single molecule sequencing reads
Flye is a de novo assembler for long and noisy reads, such as those produced by PacBio and Oxford Nanopore Technologies. The algorithm uses an A-Bruijn graph to find the ove...2186 days ago