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deepmind-research

This repository contains implementations and illustrative code to accompany DeepMind publications

deeppocket

Ligand Binding Site detection using Deep Learning

deepvariant

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

del_qsar

deldenoiser

Remove effects of truncated side-products from read count data of a DNA-encoded library.

dentist

DENTIST (Detecting Errors iN analyses of summary staTISTics) is a QC tool for summary-data-based analyses.

depmap

Cancer Dependency Map package

diabetes-analysis

Analyse data from MySugr App and Medtronic Carelink. Find patterns, improve therapy.

dleps

A Deep Learning based Efficacy Prediction System for drug discovery

dockit

High-throughput molecular docking with multiple targets and ligands using Vina series engines

dtinet

A Network Integration Approach for Drug-Target Interaction Prediction

edesigner_core

efo

Github repo for the Experimental Factor Ontology (EFO)

emagma-tutorial

A step by step guide on how to use eMAGMA, an approach to conducting eQTL informed gene-based tests.

emogi

An explainable multi-omics graph integration method based on graph convolutional networks to predict cancer genes.

expresto

Data, results, and code accompanying the manuscript: "A Flexible, Interpretable, and Accurate Approach for Imputing the Expression of Unmeasured Genes" "

fetchcbioportal

This script allows you to get data from cbioportal using the same query format as cbioportal's web API in a tab delimited .txt file in you current directory

fg-filter

Lightweight functional group filter for large sets of organic molecules

genetics-sumstat-harmoniser

Harmonise GWAS summary statistics against a reference VCF

gentrl

Generative Tensorial Reinforcement Learning (GENTRL) model

gln

Implementation of Retrosynthesis Prediction with Conditional Graph Logic Network

glu

A tool for analysing continuous glucose monitoring (CGM) data in epidemiology.

glucose-learning

Utilize machine learning for ue with continuous glucose monitor data

glyculator

Web-based tool to calculate glycemic variability indices from Continuous Glucose Measurements (CGMs)

gwa_tutorial

A comprehensive tutorial about GWAS and PRS

hotspots

Identifying recurrent mutations in cancer

ipanda

insilico Pathway Activation Network Decomposition Analysis (iPANDA) package. Owned by Insilico Medicine Inc. iPANDA is a pathway analysis method that aids interpretation of large-scale gene expression data. The method introduced here includes coexpression analysis and gene importance estimation to robustly identify relevant pathways and biomarkers

ivpgan

Integrated View Predictive GAN for Drug-Target Indication Prediction

kentutils

UCSC command line bioinformatic utilities

klifs_utils

Utility functions to work with KLIFS data