aihardin

LLM101n

LLM101n: Let's build a Storyteller

imaging-research

gpt-engineer

Specify what you want it to build, the AI asks for clarification, and then builds it.

Causal-Inference-and-Discovery-in-Python

Causal Inference and Discovery in Python by Packt Publishing

flash-attention

Fast and memory-efficient exact attention

Python

All Algorithms implemented in Python

lecture_notes

Lecture Notes on Computational and Mathematical Population Genetics

spVCF

Sparse Project VCF: evolution of VCF to encode population genotype matrices efficiently

popgen-notes

Population genetics notes

dash-canvas

An interactive image editing component for Dash

dash-bio

Open-source bioinformatics components for Dash

bwa-mem2

The next version of bwa-mem

JustOrthologs

Machine-Learning-in-R

Workshop (6 hours): preprocessing, cross-validation, lasso, decision trees, random forest, xgboost, superlearner ensembles

Apollo

Genome annotation editor with a Java Server backend and a Javascript client that runs in a web browser as a JBrowse plugin.

ideogram

Chromosome visualization for the web

dataviz

A book covering the fundamentals of data visualization

coda

Coda: a convolutional denoising algorithm for genome-wide ChIP-seq data

strawberry

A program for fast and accurate genome-guided transcripts reconstruction and quantification from RNA-seq (Supporting Pacbio single-end)

16GT

Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model

NCBIComputationalCookbook

Jupyter notebooks to more effectively leverage computational resources at NCBI.

facets

Visualizations for machine learning datasets

last-genome-alignments

sircel

Identify cell barcodes from single-cell genomics sequencing experiments

ray

Ray is a unified framework for scaling AI and Python applications. Ray consists of a core distributed runtime and a set of AI Libraries for accelerating ML workloads.

hyperband

Tuning hyperparams fast with Hyperband

ML-From-Scratch

Machine Learning From Scratch. Bare bones NumPy implementations of machine learning models and algorithms with a focus on accessibility. Aims to cover everything from linear regression to deep learning.

MLAlgorithms

Minimal and clean examples of machine learning algorithms implementations

bedtools2

bedtools - the swiss army knife for genome arithmetic

TBro

Visualization and management of denovo transcriptomes