MECAT: fast mapping, error correction, and de novo assembly for single-molecule sequencing reads
MECAT is an ultra-fast Mapping, Error Correction and de novo Assembly Tools for single molecula sequencing (SMRT) re...or effectively de novo assemblying large genomes. For example, on a 32-thread computer...2184 days ago
2180 days ago
DUPCAR: Reconstructing Contiguous Ancestral Regions with Duplications
we propose a heuristic algorithm, called DUPCAR, for reconstructing ancestral genomic orders with duplications. The...s by connecting genes into contiguous regions based on predicted adjacencies. Computer...2174 days ago
SOAP2 : Short Oligonucleotide Analysis Package 2
SOAPaligner/soap2 is a member of the SOAP (Short Oligonucleotide Analysis Package). It is an updated version of SOAP...2way-BWT) are developed by the algorithms research group of the Department of Computer...2172 days ago
JBrowse: Embeddable genome browser built completely with JavaScript and HTML5
JBrowse is a fast, embeddable genome browser built completely with JavaScript and HTML5, with optional run-once data...nomes and deep-coverage sequencing. Quickly open and view data files on your computer...2135 days ago
Snippy: Rapid haploid variant calling and core SNP phylogeny
Snippy finds SNPs between a haploid reference genome and your NGS sequence reads. It will find both substitutions (s...s/deletions (indels). It will use as many CPUs as you can give it on a single computer...2023 days ago
FinisherSC:a repeat-aware tool for upgrading de novo assembly using long reads
Here is the command to run the tool: python finisherSC.py destinedFolder mummerPath If you are running on server computer...2083 days ago
CBS Comparative Microbial Genomics group - BioTools download page
he CMG-biotools system presents a stand-alone interface for comparative microbial genomics. The package is a custo...ough the open source Ubuntu project. The system can be installed on a virtual computer...2081 days ago
Snakemake—a scalable bioinformatics workflow engine
Snakemake is a workflow engine that provides a readable Python-based workflow definition language and a powerful execution environment that scales from single-core workstations to compute clusters without modifying the workflow.2070 days ago
MimicrEE2: Genome-wide forward simulations of Evolve and Resequencing studies
MimicrEE2, a multi-threaded Java program for genome-wide forward simulations of evolving populations. MimicrEE2 enab...ls (selective sweeps, polygenic adaptation, epistasis). MimicrEE2 runs on any computer...2044 days ago