poRe: an R package for the visualization and analysis of nanopore sequencing data
Motivation: The Oxford Nanopore MinION device represents a uniqu.... To enable these applications, the bioinformatics community will need to design and build a suite of tools specif...to manipulate, organize, summarize and visualize...t/projects/rpore/ . A tutorial and fur...2406 days ago
SIMA C++ Implementation: Simultaneous Multiple Alignment of LC/MS Peak Lists
This is the c++ implementation for SIMA - Simultaneous Multiple Alignment of LC/...ta 32bit, Windows 2008 Server, Windows 7 32bit and 64bit, Ubuntu 10.04 64bit, Ubuntu 10.10 64bit, and gentoo AM...taneous Muliple Alignment of LC/MS Peak Lists, Bioinfo...2406 days ago
coursera genome assembly tutorial
Solutions to Coursera Genome Sequencing (Bioinformatics II)2404 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
Miniasm is a very fast OLC-based de novo assembler fo...lly by minimap) as input and outputs an assembly graph in...n tested on a dozen of PacBio and Oxford Nanopore (ONT) bacteri...s 9 out of 12 PacBio datasets and 3 out of 4 ONT datasets into...iasm assembly (on the X axis) and the HGAP3...2402 days ago
Opera: An optimal genome scaffolding program
...long reads to optimally order and orient contigs assembled from...res for the assembly of large and complex genomes.Song Gao, Den...erformance guarantees. Genome Biology, May 2016, doi: 10.1186/s13059-016-...red-end sequences. Journal of Computational Biology, Sept. 2011, doi:10.1089/cmb....2402 days ago
Computational Genomics: Applied Comparative Genomics
The primary goal of the course is for students to be grounded in theory and leave the course empowered to...nbsp;We will study the leading computational and quantitative approaches for c...e will focus on human genomics and human medical applications, but the tec...ion, personal genome analysis, and can...2401 days ago
2400 days ago
phyloXML: XML for evolutionary biology and comparative genomics
phyloXML (example) is an XML language designed to describe phylogenetic trees (or networks) and associated data. PhyloXML pro...uch as taxonomic information, gene names and identifie...operability between various applications and dat...2400 days ago
PLAST: A fast, accurate and NGS scalable bank-to-bank sequence similarity search tool
PLAST is a fast, accurate and NGS scalable bank-to-bank sequence simil...dditional hardware devices. PLAST stands for Parallel Local Sequence Alignment Search Tool and is was published in BMC Bioinformatic...l advantage of multi-core processors and use...2399 days ago
Bandage: interactive visualization of de novo genome assemblies
Bandage (a Bioinformatics Application for Navigating De novo&nbs...n zoom in to specific areas of the graph and interact with it by moving nodes, adding labels, changing colors and extractin...tigation of contigs alone. Availability and imp...2395 days ago