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accessing_public_genomic_data

Tutorials on accessing public reference and genomic data

ads1-notebooks

Copies of notebooks used in the practical sessions for Algorithms for DNA Sequencing

apalyzer-test

APALYZER-test

awesome-deepbio

A curated list of awesome deep learning applications in the field of computational biology

awesome-single-cell

List of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

bioinformatics-paper-2020.12

Bioinformatics course related papers: sample code of deep learning application in Bioinformatics

bioinformatics-with-python-cookbook-second-edition

Bioinformatics with Python Cookbook Second Edition, published by Packt

bioutils

Standalone utility scripts for bioinformatics

bmdi_class_2024

Biomedical Data Science Initiative class - 2024

bob_ross_paintings

Dataset: All Bob Ross paintings

chipseqpipe

Components of an automated ChIPseq and ATACseq pipeline

complete-python-3-bootcamp

Course Files for Complete Python 3 Bootcamp Course on Udemy

csama

Course material for CSAMA: Statistical Data Analysis for Genome Scale Biology

deep-learning-dna-sequences

Deep learning for identifying important motifs in DNA sequences. Exploration of the structure of the human genome by training neural network architectures (CNN, LSTM, Attention).

deep-learning-for-predicting-transcription-factor-binding-site-in-dna-ml-in-bioin-summer-school-2020

This was a hands-on tutorial during a ML in Bioinformatics Summer School in 2020

deep_learning_examples

Examples of using deep learning in Bioinformatics

deepchem

Democratizing Deep-Learning for Drug Discovery, Quantum Chemistry, Materials Science and Biology

dge_workshop_salmon

dge_workshop_salmon_online

dna-sequencing-classifier

dragonn

A toolkit to learn how to model and interpret regulatory sequence data using deep learning.

flair

Full-Length Alternative Isoform analysis of RNA

genome4d

Study the genome structure and function

idep

Integrated Differential Expression and Pathway analysis

interactive-enrichment-analysis

A set of Shiny apps to provide interactive enrichment analysis and exploration of results.

intro-to-rnaseq-hpc-salmon

learning_sequence_motifs

"Representation Learning of Genomic Sequence Motifs with Convolutional Neural Networks" by Peter K. Koo and Sean R. Eddy

mediprobe-drug-discovery

In the fields of drug discovery and development, machine learning techniques have been used for the development of novel drug candidates. The methods for designing drug targets and novel drug discovery now routinely combine machine learning and deep learning algorithms to enhance the efficiency, efficacy, and quality of developed outputs.

ml_ds_courses

Tutorials on Machine Learning and Data Science online courses

mlsf-protocol