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reactome2py

python client for reactome content, analysis, and human functional protein interactions (FI) services api calls.

reinvent

Molecular De Novo design using Recurrent Neural Networks and Reinforcement Learning

reinvent-multi-target

reinvent-randomized

Recurrent Neural Network using randomized SMILES strings to generate molecules

reinvent-scaffold-decorator

A SMILES-based encoder-decoder architecture for molecular scaffold decoration

reinventcommunity

release

Deep Reinforcement Learning for de-novo Drug Design

reproducible-computational-workflows

A Practical Introduction to Reproducible Computational Workflows (ISMB/ECCB 2019 Tutorial AM4)

resources

A Highly Opinionated List of Open Source Cheminformatics Resources

retraining_notebook

Using Jupyter Notebooks for Re-training Machine Learning Models

retrosynthesis

Applying deep neural networks for retrosynthesis tasks

retrosynthesis-prediction

Retrosynthesis reaction prediction using Transformer sequence to sequence models and SMILES based data augmentation

retrosynthesis_planner

Retrosynthesis planner

rjt-rl

RJT-RL: De novo molecular design using a Reversible Junction Tree and Reinforcement Learning

rl-graphinvent

RL-GraphINVENT is a platform for graph-based targeted molecular generation using graph neural networks and reinforcement learning. RL-GraphINVENT uses a Gated Graph Neural Network -based model fine-tuned using reinforcement learning to probabilistically generate new molecules with desired property profiles.

rls-kf

R Codes for Drug-Target Interaction Prediction

rna-seq-cb321qc

Teaching RNA-seq experimental design and analysis + data storage and sharing for genomics data

rna-seq-pipeline

rna-seq-with-reference-genome-and-annotation

rna-structural-bioinformatics-crash-course

RNA Structural Bioinformatics Crash Course & Data Science in Python

rnabio.org

website for the rnaseq course

rnadetector

RNAdetector: a free user-friendly and stand-alone software for RNA-Seq data analysis

rnafusion

RNA-seq analysis pipeline for detection gene-fusions

rnaseq

RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

rnaseqdb

rnn_generator

rosenet

rosettafold

This package contains deep learning models and related scripts for RoseTTAFold

rstudio-server-conda

Run Rstudio Server in a conda environment

sanbomics_scripts

scripts and notebooks from sanbomics