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pyhpo

A Python library to work with, analyze, filter and inspect the Human Phenotype Ontology

pymol-psico

Pymol ScrIpt COllection (PSICO)

pypath

python module for signaling pathways analysis accompanying OmniPath

pypdb

A Python API for the RCSB Protein Data Bank (PDB)

pyrosetta.notebooks

Jupyter Notebooks for learning the PyRosetta platform for biomolecular structure prediction and design

python-machine-learning-book

The "Python Machine Learning" book code repository and info resource

python-stitch-client

A python client library for the Stitch Import API

pythondata

repo for code published on pythondata.com

pythondatasciencehandbook

Jupyter Notebooks for the Python Data Science Handbook

pytorch_geometric

Geometric Deep Learning Extension Library for PyTorch

quickdraw-dataset

Documentation on how to access and use the Quick, Draw! Dataset.

rdkit-tutorials

Tutorials to learn how to work with the RDKit

rdkit_blog

RDKit related blog posts, notebooks, and data.

regression-er-alpha-

QSAR study of Er alpha by ligand fingerprint

repurpose

Reproducible drug repurposing: a Python-based framework for building drug-disease association classifiers

retrotemp

Retrosynthesis by template prediction (a la Segler and Waller)

rgn

Recurrent Geometric Networks for end-to-end differentiable learning of protein structure

rigetti_training_material

Slide decks and Jupyter notebooks for training on Rigetti's quantum software stack at the Creative Destruction Lab 2018.

rna-seq-analysis

RNAseq analysis notes from Tommy Tang

rna-seq-diff-exprn

RNA-Sequencing data differential expression analysis pipeline. Performs: genome coverage (via bedtools and HTSeq), generates Circos code and plots, differential expression (via DESeq and NOISeq), structural variant detection (e.g. fusion genes, via SVDetect) and differential exon usage (via DEXSeq).

rnaseq_tutorial

Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.

rnn-tutorial

Recurrent Neural Networks - A Short TensorFlow Tutorial

sars-cov-2_b.1.1.529_spike-rbd_predictions

AlphaFold2 and RoseTTAFold predictions of the SARS-CoV-2 B.1.1.529 variant Spike protein with HADDOCK antibody interactions

scikit-bio-cookbook

Recipes for bioinformatics analyses with scikit-bio

simple-neural-network

A simple Python script showing how the backpropagation algorithm works.

simulate-expression-compendia

Evaluating the effect of technical sources of variability in large-scale gene expression compendia.

skldj

A django app as an interface to scikit-learn

sklearn-classification

Data Science Notebook on a Classification Task, using sklearn and Tensorflow .

smallmoleculesuite

smilespe

SMILES Pair Encoding: A data-driven substructure representation of chemicals