hyphy-mpi

Hypothesis testing using Phylogenies (MPI version)

HyPhy is an open-source software package for the analysis of genetic sequences using techniques in phylogenetics, molecular evolution, and machine learning. It features a complete graphical user interface (GUI) and a rich scripting language for limitless customization of analyses. Additionally, HyPhy features support for parallel computing environments (via message passing interface) and it can be compiled as a shared library and called from other programming environments such as Python or R. Continued development of HyPhy is currently supported in part by an NIGMS R01 award 1R01GM093939.

jarwrapper

Run executable Java .jar files

Jarwrapper sets up binfmt-misc to run executable jar files using the installed java runtime.

javahelper

Helper scripts for packaging Java programs

Javahelper contains several scripts which help in packaging Java programs.

mothur

sequence analysis suite for research on microbiota

Mothur seeks to develop a single piece of open-source, expandable software to fill the bioinformatics needs of the microbial ecology community. It has incorporated the functionality of dotur, sons, treeclimber, s-libshuff, unifrac, and much more. In addition to improving the flexibility of these algorithms, a number of other features including calculators and visualization tools were added.

python3-sniffio

detect which async Python library is in use (Python3 version)

Python library that support multiple async packages (like Trio, asyncio, etc) need to know which is in use. This library provides this information.

r-cran-munsell

Utilities for using Munsell colors

Provides easy access to, and manipulation of, the Munsell colors. Provides a mapping between Munsell's original notation (e.g., "5R 5/10") and hexadecimal strings suitable for use directly in R graphics. Also provides utilities to explore slices through the Munsell color tree, to transform Munsell colors and display color palettes.