2478 days ago
QuorUM: An Error Corrector for Illumina Reads
Illumina Sequencing data can provide high coverage of a genome by re...s. However, there is enough information in the reads to correct...sequent use of the data (e.g. for mapping or assembly) easier....developed an error correction software called QuorUM. QuorUM is...distributed as an independent software pa...2385 days ago
Unicycler: Hybrid assembly pipeline for bacterial genomes
Unicycler is an assembly pipeline for bacterial genomes. It can assemble Illumina-only re...ts (PacBio or Nanopore) where it runs a miniasm+Racon pipeline. For the bes...2383 days ago
2379 days ago
DFAST: a flexible prokaryotic genome annotation pipeline for faster genome publication
We developed a prokaryotic genome annotation pipeline, DFAST, that als...ed background annotation engine for DFAST, which is also availabl...within 10 minutes, with rich information such as pseudogenes, tr...ability and Implementation The softwa...xternal binaries bundled in the software di...2379 days ago
CHSMiner: a GUI tool to identify chromosomal homologous segments
Background The identification of chromosomal homologous segments...between genomes is essential for comparative genomics. Various...sults Here we present a Java software CHSMiner that detects CH...of the results. We tested the software on both simulated and bi...ient usage. It will be useful for both ex...2375 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 takes al...ly graph in the GFA format. Different from mainstream...ed on a dozen of PacBio and Oxford Nanopore (ONT) bacterial dat...red from the Loman Lab. For a C. elegans PacBio...2366 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....r hybrid approaches which combine these predictions for al...classification steps. This work has been accepted for publica...2366 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 simulta...2366 days ago
simNGS and simLibrary – Software for Simulating Next-Gen Sequencing Data
simNGS is software for simulating observations from Illumina sequencing mac...stical models behind the AYB base-calling software. By default, observation...y optionally applied. simNGS takes fasta format...oisy intensities representing the signals for the seq...2365 days ago