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hamishdm's starred repositories

mrmr

mRMR (minimum-Redundancy-Maximum-Relevance) for automatic feature selection at scale.

Language:PythonMIT50700

voice_chatgpt

VoiceGPT is a voice assistant that leverages the powerful ChatGPT chatbot to answer your questions.

Language:PythonNOASSERTION31300

UKB-RAP-Notebooks-Access

UKB RAP Notebooks contains a collection of examples of how to use UK Biobank Research Analyses Platform (RAP).

Language:Jupyter NotebookMIT3300

ukbrest

ukbREST: efficient and streamlined data access for reproducible research of large biobanks

Language:PythonMIT3800

tvb-ukbb

TVB-UKBB Pipeline: TheVirtualBrain implementation of the UK Biobank pipeline

Language:ShellNOASSERTION2300

UKB_RAP

Access share reviewed code & Jupyter Notebooks for use on the UK Biobank (UKBB) Research Application Platform. Includes resources from DNAnexus webinars, online trainings and workshops.

Language:Jupyter NotebookMIT10800

UKB

repository for scripts used in UK BioBank analyses

Language:HTMLGPL-3.03200

UKBiobankGWAS

Notes and code for running UK Biobank GWAS at the MRC IEU

Language:PythonGPL-3.01300

docker-ukbiobank-utils

Docker image for running UK Biobank utilities: ukbunpack, ukbfetch, ukblink, ukbgene, ukbmd5, ukbconv, and gfetch

Language:DockerfileApache-2.01100

ukb-rap-tools

Scripts and workflows for use analyzing UK Biobank data from the DNANexus Research Analysis Platform

Language:Shell3800

UKBCaseFinder

A tool for identifying patients in UK biobank given the definition of disease phenotypes (icd10, icd9, opcs or cancer histology).

Language:R1600

ukbiobank-resources

A curated list for preprocessing, cleaning, mapping and analyzing UK Biobank data.

4200

UKBiobank-Brain-Age

Multi-modality brain-age analysis in the UK Biobank

GPL-3.0700

ukbbhelpr

Helper functions for UK Biobank data

Language:RNOASSERTION1300

UKB_DRP

Dementia (Alzheimer's Disease) Risk Prediction Tool based on UK Biobank

Language:Python1500

UK_Biobank_PRS

Generating polygenic risk scores in UK Biobank (University of Bristol)

Language:R1300

ukbwranglr

R package for UK Biobank data wrangling.

Language:RNOASSERTION1400

ukbiobanker

UK Biobank data manipulation routines

Language:RCC0-1.0400

ukb_vd_hz_publish

Analytic codes for UK Biobank project vitamin D and herpes zoster

Language:R400

ukbfrailty

Calculation of a frailty index for UK Biobank participants

Language:StataCC0-1.0600

ukbutils

Collection of tools for working on UK Biobank RAP.

Language:PythonMIT100

ukbmisc

Miscellaneous utility functions for working with UK Biobank data

Language:RNOASSERTION100

ukb-scripts

Collection of scripts used for UK Biobank QC and analyses

Language:R300

UKB_BCT_TWAS

Analysis code for our preprint, "Transcriptome-wide association study in UK Biobank Europeans identifies associations with blood cell traits"

Language:R100

gscan-ukb-phenos

A script to derive standardized smoking and drinking variables from the UK Biobank for the GSCAN project.

Language:PythonMIT300

imputation-ukb-ref-panel

Genotype imputation pipelines for the UK Biobank Research Analysis Platform

Language:ShellMIT800

ukb_dnanexus

Tutorial for using the DNAnexus platform to process UK Biobank data

Language:Shell100

uk-biobank

Code and visualizations for UK Biobank Project

Language:PythonMIT200

adni_phenotypes

Identifying healthy individuals with Alzheimer neuroimaging phenotypes in the UK Biobank

Language:PythonNOASSERTION400

bwa

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

Language:CGPL-3.0149200