Our Sponsors
Related items
MIKE: an ultrafast, assembly-, and alignment-free approach for phylogenetic tree construction
By Abhi 910 days agogithub.com - MIKE (MinHash-based k-mer algorithm). This algorithm is designed for the swift calculation of the Jaccard coefficient directly from raw sequencing reads and enables the construction of phylogenetic trees based on the resultant Jaccard...SDA: Long-read sequence and assembly of segmental duplications
By Jit 2771 days agowww.nature.com - Segmental Duplication Assembler (SDA; https://github.com/mvollger/SDA) constructs graphs in which paralogous sequence variants define the nodes and long-read sequences provide attraction and repulsion edges, enabling the partition and assembly of...Supernova: generates phased, whole-genome de novo assemblies from a Chromium-prepared library.
By Jit 2318 days agosupport.10xgenomics.com - Supernova generates phased, whole-genome de novo assemblies from a Chromium-prepared library. Please see Achieving Success with De Novo Assembly and System Requirements before creating your Chromium libraries for...GraphUnzip: Phases an assembly graph using Hi-C data and/or long reads.
By Jit 2067 days agogithub.com - GraphUnzip, a fast, memory-efficient and accurate tool to unzip assembly graphs into their constituent haplotypes using long reads and/or Hi-C data. As GraphUnzip only connects sequences in the assembly graph that already had a potential link based...nf-core/mag v5: Advancing Genome-Resolved Metagenomics
By LEGE 22 days agoMetagenomics is rapidly moving beyond short-read sequencing. With the increasing adoption of long-read technologies, researchers can generate more contiguous assemblies—but converting these reads into reliable metagenome-assembled genomes (MAGs)...MetaBAT: An Efficient Tool for Accurately Reconstructing Single Genomes from Complex Microbial...
By Jit 3500 days agobitbucket.org - MetaBAT, An Efficient Tool for Accurately Reconstructing Single Genomes from Complex Microbial Communities Grouping large genomic fragments assembled from shotgun metagenomic sequences to deconvolute complex microbial communities, or metagenome...Meraculous: De Novo Genome Assembly with Short Paired-End Reads
By Jit 3254 days agowww.ncbi.nlm.nih.gov - We describe a new algorithm, meraculous, for whole genome assembly of deep paired-end short reads, and apply it to the assembly of a dataset of paired 75-bp Illumina reads derived from the 15.4 megabase genome of the haploid yeast Pichia...Consed--A Finishing Package (BAM File Viewer, Assembly Editor, Autofinish, Autoreport, Autoedit,...
By Neel 2432 days agowww.phrap.org - Supports Illumina, 454, other Next-Gen and Sanger Reads and allows mixtures of these read types Consed includes BamScape which can view bam files with unlimited numbers of reads. BamScape can bring up consed to edit reads and the reference sequence...Protocol for De novo Genome Assembly using Illumina Reads
By BioStar 2087 days agoIn this protocol, we address and describe the de novo assembly method for small to medium-sized genomes.Scripts for the analysis of HGT in genome sequence data.
By Jit 3231 days agogithub.com - Scripts for the analysis of HGT in genome sequence data
