babessell1

Brandt Bessell's repositories

MADRID

Metabolic Drug Repurposing Pipeline

Language:PythonGPL-3.04 10

AluNet

Weighted Leiden algorithm for modeling Alu-mediated enhancer-promoter interaction networks

Language:HTMLGPL-3.03 10

Library for reading LiDAR scan reads from ROS and Mission Planner telemetry outputs to calculate and map geometric/geographic properties of understory trees which cannot be measured from arial imaging.

Language:PythonGPL-3.02 20

mei_metrics

Language:Python1 20

pyZINQ

Language:TeXGPL-3.0100

RogueLight

Rogue-like game written in Python using libtcod, core gameplay mechanic is centered around limited lighting resources.

Language:Python100

STRonvoli

CNN for enhancing short read STR calls

Language:Jupyter Notebook100

awsf3-dev-docker

Language:Shell000

bioinf545_project

Language:R000

cobamp

Constraint-based modeling framework for the enumeration of pathway analysis concepts

Language:Jupyter NotebookGPL-3.0010

ehdn-docker

docker for running expansion hunter de novo through cwl

Language:Shell010

ExpansionHunterDenovo-LRDN

A tool for local read depth normalization of ExpansionHunter denovo calls.

Language:PythonGPL-3.0000

ExpHunterPipe

Language:Python000

FastqToGeneCounts

Snakemake pipeline for use in computing cluster to pull RNA-seq fastq reads from GEO, trim, run quality checks and align. Output interfaces with MADRID

Language:Python000

MetReFIT

Brute force algorithm for finding biosynthetic gaps in COBRA formated constraint-based metabolic models. Can provide models or reaction databases of related species with relative scores on how closely related they are to attempt to fill in gaps. Handles reactions from multiple databases including KEGG, modelSEED, and MetaCyc to attempt to fill.

Language:MATLAB020