beRi
beRi is a set of Python packages which is composed of an R virtual environment manager (renv), an R installation manager (rinse), and an R utility tool for installing and managing R packages and R package libraries (rut).
What We Do
We snake through bioinformatics topics using Python and R programming with the aim of reproducibility and scalability. Mainly, our focus is on creating R Shiny apps, Python libraries, command-line tools, and genomics pipelines.
Here are a few topics we're interested in:
- RNA-seq analysis & visualization
- Orthology inference
- R package management and R environment management
- Development of command-line tools for genomics pipelines
- Improving the reproducibility of microbiome analysis
In October 2018, we participated in hackseq18 in which our project, beRi, was the winner!
w00t w00t Congratz to team beRi for being selected the #hackseq18 winners!https://t.co/I43sRmRTNz#HackTheGenome #R4Lyfe
— hackseq (@hackseq) October 15, 2018
GitHub Projects
Here are a few of our GitHub projects.
OrthoEvolution
OrthoEvolution is an easy to use and comprehensive Python package which aids in the analysis and visualization of orthologous genes.
htseq-count-cluster
A Python CLI/wrapper for running multiple qsub jobs with HTSeq's htseq-count script on a SGE/SGI cluster.
The Datasnakes
Robert Gilmore
Biomedical Engineer, Software Developer, & Datasnakes Co-founder
Shaurita Hutchins
PhD Candidate in Genetics, Genomics, and Bioinformatics & Datasnakes Co-founder
Santina Lin
Backend Engineer at Ramp & Scientist-Turned-Engineer
Bruno Grande, Ph.D.
Senior Software Engineer & hackseq Co-founder
Feel free to email us at datasnakes@gmail.com for information about our current team projects or for a consultation.