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 compute...2019 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 compute...2079 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 compute...2076 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 compute...2040 days ago
2026 days ago
Deepbinner: a signal-level demultiplexer for Oxford Nanopore reads
Deepbinner is a tool for demultiplexing barcoded Oxford Nanopore sequencing reads. It does this with a dee...s not the raw fast5 files (which Deepbinner requires). You have a small/slow compute...1980 days ago
FGENESH - Program for predicting multiple genes in genomic DNA sequences
FGENESH is the fastest (50-100 times faster than GenScan) a...sful (gene finding) program (Yu et al. (2002) Science 296:79) and was used to produ...-evidence predicted genes (Goff et al. (2002) Science 296:79).1957 days ago
Hawkeye: an interactive visual analytics tool for genome assemblies
Genome sequencing remains an inexact science, and genome sequences can contain significant errors if they are not carefully examined. Hawkeye is our new visual analytics tool for genome a...1945 days ago
GenoViz: Visualization software for genomics
GenoViz provides software applications and re-usable components for data visualization and data sharing in genomics....new releases of IGB as compiled code (igb.zip) you can use to run IGB on your compute...1944 days ago
kallisto: a program for quantifying abundances of transcripts from bulk and single-cell RNA-Seq data
kallisto is a program for quantifying abundances of transcripts from bulk and single-cell RNA-Seq data, or more...p;can quantify 30 million human reads in less than 3 minutes on a Mac desktop compute...1939 days ago