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alunet

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

auto-tsi

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.

awsf3-dev-docker

bioinf545_project

cobamp

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

diego-garcia-native-rezoning

For my friend's thesis project. An interactive Dash webapp for natives who were forced off their home of Diego Garcia to remember the island for how it was, and redesign the island plan how they would want it if given the opportunity to go home.

ehdn-docker

docker for running expansion hunter de novo through cwl

expansionhunterdenovo-lrdn

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

exphunterpipe

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

index-docker

madrid

Metabolic Drug Repurposing Pipeline

master

mei_metrics

melt-docker

melt-docker-alu

melt-docker-l1

melt-docker-sva

melt_docker

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.

optlang

optlang - experimenting with fixing seeds

pyzinq

roguelight

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

rpy2-docker

Running rpy2 in Docker containers

str_sandbox

Sandbox for exploring various ideas related to tandem repeats

stripe

strling-docker

Automated Docker containerization for STRling

strling-generic

stronvoli

CNN for enhancing short read STR calls

tibanna

fix awsf3