Bush Lab

Bioinformatics tools, including SAMtools, BCFtools, and HTSlib.

GPU powered privateGPT with llama-cpp-python, along with CUDA 11.8 and NVIDIA-SMI 535.54.

R with RStudio, Data Analysis R Packages, and Bioinformatics tools.

Pytorch and Tensorflow with CUDA11.8 support, NVIDIA_SMI 535.54.03, Jupyter(with R kernel support).

phASER: phasing and Allele Specific Expression from RNA-seq

PolyFun, PolyLoc and PolyPred, with PLINK 1.9 and Jupyter with an R Kernel.

Ensembl VEP(Variant Effect Predictor) Release 110 with COCOS (Codon Consequence Scanner) plugin.

SOLAR-Eclipse v9.0.0

R, RStudio(with Tidyverse) and PLINK.

R with an installation of BiocManager and SeqArray.

Jupyter Lab, Tensorflow, Pytorch, CUDA 11.3, and NVIDIA driver 470.57.02 for Linux x86_64.

A docker container for use of SnpEff.

A docker image to run Combined Annotation Dependent Depletion (CADD).