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agroculture

AgroCulture

cpgwas

Tools to support Methylome-wide Association Studies (MWAS), not to be confused with Metabolome-Wide Association Studies (the other MWAS)

cubeglm

Python implementation of general linear model for quantifying fluorophores in fluorescent hyperspectral images

cubeml

Interface to apply machine learning to segmentation of hyperspectral images (hypercubes)

densenet

Contamination Classification DenseNet

dpl_u19

Deep Learning for Life Scientists Pilot

elastictorch

Pytorch implementation of ElasticNet, intended for investigative benchmarking at this time.

evals

Evals is a framework for evaluating LLMs and LLM systems, and an open-source registry of benchmarks.

factorimg

Simple Python package to evaluate color palettes in semantic segmentation masks

gmodetector

gmogui

Graphical interface for the high-throughput phenotyping of plant transformation and regeneration (GMOdetector)

gmolabeler

Python/R code for cross-analyzing fluorescence and semantic segmentation results to calculate statistics for development of specific transgenic plant tissues

gmonotebook

Templates for workflows cross-analyzing fluorescent hyperspectral regression with deep segmentation to study plant tissue culture transformation rates

gpt-revcomp-eval

Evals for GPT model abilities to provide reverse complements of DNA sequences

inplantagwas

mtmcskat

Cluster-friendly interface for SKAT with adaptive resampling, multi-threading over SNP windows and permutations, and higher-level parallelization over chromosomes/scaffolds.

pheno_odk_test

A test repo demonstrating design pattern -based phenotype ontology development using the Ontology Development Kit

rslurm

Submit R code to a Slurm cluster

t-loc

tensorflow-examples

TensorFlow Tutorial and Examples for Beginners with Latest APIs

terminal_jupyter_intro

Introduction tutorial for command line basics