Benjamin Doran's repositories
Urban-Sound-Classification
Urban Sound Classification: With Random Forest, SVM, DNN, RNN, and CNN Classifiers
bio-unidip-examples
Suplementary materials to "Unimodality Based Clustering Applied to Biological Motif Discovery"
LogoPlots.jl
Very basic plotting recipe for biological sequence motifs
NeighborJoining.jl
Julia package for the neighbor joining algorithm
neo4j-graphaware-container
Docker compose and configuration files for running a Neo4j 3.3.1 container with GraphAware NLP and APOC plugins installed.
Bio3DView.jl
A Julia package to view macromolecular structures in the REPL, in a Jupyter notebook/JupyterLab or in Pluto
centos-spark
Builds Centos7 docker container image with Spark2.2 installed including dependencies
docker-gmx
Docker automated build for GROMACS molecular dynamics program
motif-paper
Details application of UniDip to the problem of biologic motif discovery. We find that UniDip is able to preprocess DNA sequences such that MEME is able to find motifs 70% faster.
doran_resume
My CV
Filter10XData
WDL workflow to filter 10x data by sample
Makie.jl
Interactive data visualizations and plotting in Julia
Motif-Dataset
Bridge between JASPER and NCBI databases
MultivariateStats.jl
A Julia package for multivariate statistics and data analysis (e.g. dimension reduction)
NewickTree.jl
Newick formatted (phylogenetic) trees
ProgressMeter.jl
Progress meter for long-running computations
seurat-docker
Docker container based of rocker/verse container with seurat and dependencies installed
skinny-dip
Code and supplementary material from the KDD 2016 paper "Skinny-dip: Clustering in a sea of noise" by Samuel Maurus and Claudia Plant.
Yggdrasil
Collection of builder repositories for BinaryBuilder.jl