MimicrEE2: Genome-wide forward simulations of Evolve and Resequencing studies
...n E&R studies and offers a wide range of different adaptive models (selective sweeps, polygenic adaptation, epistasis). MimicrEE2 runs on any computer with Java installed. It is di...2043 days ago
2029 days ago
Deepbinner: a signal-level demultiplexer for Oxford Nanopore reads
...ns to not use Deepbinner: You only have basecalled reads not the raw fast5 files (which Deepbinner requires). You have a small/slow computer. Deepbinner is more computati...1983 days ago
GenoViz: Visualization software for genomics
...grated-genome-browser. We are still using SourceForge to distribute new releases of IGB as compiled code (igb.zip) you can use to run IGB on your computer. If you have questions,...1947 days ago
kallisto: a program for quantifying abundances of transcripts from bulk and single-cell RNA-Seq data
...ignment. On benchmarks with standard RNA-Seq data, kallisto can quantify 30 million human reads in less than 3 minutes on a Mac desktop computer using only the read sequences...1942 days ago
molinspiration: broad range of cheminformatics software tools supporting molecule manipulation
...tual screening, bioactivity prediction and data visualization. Molinspiration tools are written in Java, therefore can be used practically on any computer platform.1929 days ago
chromosight: Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps
Python package to detect chromatin loops (and other patterns) in Hi-C contact maps. Stable version with pip: pip3 install --user chromosight Stable version with c...1501 days ago
parallelLastz: Lastz with multi-threads support.
Running Lastz (https://github.com/lastz/lastz) in parallel mode. This program is for single computer with multiple core processors. When the query file format is fasta, you can specif...1349 days ago
Introduction to phylogenies in R
...ch as ape, phangorn, phytools, and geiger. To get the most recent CRAN version of these packages, you will need to have R 3.3.x installed on your computer!932 days ago
VCF2PopTree: a client-side software to construct population phylogeny from genome-wide SNPs
VCF2PopTree is a client-side software written in Javascript and it runs purely within the user’s computer/browser. VCF2PopTree is compatible with all population browsers in...859 days ago