Mesquite: A modular system for evolutionary analysis
Mesquite is modular, extendible software for evolutionary biology, designed to help biologists organize and analyze comparative data about organisms. Its emphasis is on phylogenetic ana...2541 days ago
LIBSVM -- A Library for Support Vector Machines
LIBSVM is an integrated software for support vector classification, (C-SVC, nu-SVC), regression (epsilon-SVR, nu-SVR) and distribution estimation (one-class SVM). It su...2526 days ago
QuorUM: An Error Corrector for Illumina Reads
Illumina Sequencing data can provide high coverage of a g...nusable sequence. We developed an error correction software called QuorUM. QuorUM is main...vailable. QuorUM is distributed as an independent software package and as a module of th...2428 days ago
Unicycler: Hybrid assembly pipeline for bacterial genomes
Unicycler is an assembly pipeline for bacterial genomes. It can assemble Illumina-only read sets where it functions as a SPAdes-optimiser. It can also assembly...2426 days ago
2422 days ago
DFAST: a flexible prokaryotic genome annotation pipeline for faster genome publication
We developed a prokaryotic genome annotation pipeline, DF...the future. Availability and Implementation The software is implemented in Python 3 an...PLv3 license with external binaries bundled in the software distribution. An on-line vers...2422 days ago
CHSMiner: a GUI tool to identify chromosomal homologous segments
Background The identification of chromosomal homologou...tion of CHSs. Results Here we present a Java software CHSMiner that detects CHSs ba...active visualization of the results. We tested the software on both simulated and biologi...2417 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It...Download sample PacBio from the PBcR website wget -O- http://www.cbcb.umd.edu/software/PBcR/data/selfSampleData.tar....2409 days ago
RITA: Rapid identification of high-confidence taxonomic assignments for metagenomic data
RITA is a standalone software package and Web server for taxonomic assignment of metagenomic sequence reads. By combining homology predictions from BLAST or UBLAST with compositio...2409 days ago
DRAWID: user-friendly Java software for chromosome measurements and idiogram drawing
"DRAWID has number of advantages including a user-friendly interactive interface, possibility for simultaneous chromosome and FISH/GISH/banding signal measurement and id...2408 days ago