GitHub topics: ukbiobank
OxWearables/biobankAccelerometerAnalysis
Extracting meaningful health information from large accelerometer datasets
Language: Python - Size: 25.4 MB - Last synced at: 11 days ago - Pushed at: 11 days ago - Stars: 215 - Forks: 68
Mele0/CKD-Patient-Profiling
Reproducible pipeline for unsupervised proteomic clustering in chronic kidney disease using UMAP and Gaussian Mixture Models, with downstream Random Forest and LASSO feature selection, pathway enrichment, and survival analysis to define molecularly distinct CKD endotypes.
Language: R - Size: 111 KB - Last synced at: 23 days ago - Pushed at: 23 days ago - Stars: 0 - Forks: 0
GlastonburyGroup/ImLatent
Deep learning pipeline to obtain latent representation from images using 2D and 3D diffusion and other autoencoders
Language: Python - Size: 88.9 MB - Last synced at: 27 days ago - Pushed at: 27 days ago - Stars: 1 - Forks: 2
steno-aarhus/ukbAid
Aid researchers who work on the UKB RAP.
Language: R - Size: 16.3 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 9 - Forks: 5
OxWearables/actipy
Python Software Development Kit (SDK) to process wearable sensor data
Language: Python - Size: 271 KB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 24 - Forks: 11
dnanexus/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 Notebook - Size: 8.86 MB - Last synced at: 4 months ago - Pushed at: 12 months ago - Stars: 159 - Forks: 52
rivas-lab/ukbb-tools
Tools for preprocessing, QC, and preliminary analyses from raw UK BioBank data
Language: Jupyter Notebook - Size: 174 MB - Last synced at: 3 months ago - Pushed at: almost 3 years ago - Stars: 11 - Forks: 0
thbuerg/NeuralCVD
🫀 Code for "Neural network-based integration of polygenic and clinical information: Development and validation of a prediction model for 10 year risk of major adverse cardiac events in the UK Biobank cohort" 🫀
Language: Jupyter Notebook - Size: 4.09 MB - Last synced at: 4 months ago - Pushed at: over 3 years ago - Stars: 12 - Forks: 5
tjiagoM/adni_phenotypes
Identifying healthy individuals with Alzheimer neuroimaging phenotypes in the UK Biobank
Language: Python - Size: 19.4 MB - Last synced at: 4 months ago - Pushed at: about 1 year ago - Stars: 6 - Forks: 0
nimh-dsst/dataset-phenotypes
Preparatory scripts for BIDS tabular phenotypic data in large neuroimaging datasets.
Language: Python - Size: 7.64 MB - Last synced at: 6 days ago - Pushed at: almost 2 years ago - Stars: 9 - Forks: 2
rmgpanw/codemapper
R package for working with clinical codes
Language: R - Size: 9.73 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 3 - Forks: 0
ivychad/Physical-Activity-BrainAGE
Code for BrainAGE computation from UKBiobank T1 MRI data and further preprocessing and analysis of accelerometer-measured and self-reported physical activity and fitness data in relationship with BrainAGE..
Language: Jupyter Notebook - Size: 117 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 1 - Forks: 0
yeyixuan/UKBCaseFinder
A tool for identifying patients in UK biobank given the definition of disease phenotypes (icd10, icd9, opcs or cancer histology).
Language: R - Size: 9.77 KB - Last synced at: 4 months ago - Pushed at: almost 7 years ago - Stars: 20 - Forks: 4
spiros/tofu
Tofu is a Python tool for generating synthetic UK Biobank data.
Language: Python - Size: 1.58 MB - Last synced at: 4 months ago - Pushed at: almost 2 years ago - Stars: 57 - Forks: 9
dlcgold/muPBWT
A PBWT-based light index for UK Biobank scale genotype data.
Language: C++ - Size: 104 MB - Last synced at: 1 day ago - Pushed at: 1 day ago - Stars: 7 - Forks: 0
rivas-lab/snpnet
snpnet - Efficient Lasso Solver for Large-scale genetic variant data
Language: R - Size: 7.52 MB - Last synced at: 4 months ago - Pushed at: over 1 year ago - Stars: 18 - Forks: 3
YADengUU/censGWAS
Perform GWAS on Phenotype Measurements Subject to Limit of Detection for Biobank-Scale Dataset
Language: R - Size: 312 KB - Last synced at: 8 months ago - Pushed at: 8 months ago - Stars: 0 - Forks: 0
steno-aarhus/legliv
Substitution of red meat with legumes and risk of primary liver cancer in UK Biobank participants: A prospective cohort study
Language: R - Size: 19 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 1 - Forks: 0
spiros/ukb-biomarker-phenotypes
Phenotyping algorithms for common biomarkers in primary care EHR for UK Biobank
Size: 74.2 KB - Last synced at: 4 months ago - Pushed at: over 4 years ago - Stars: 24 - Forks: 3
neurodatascience/ukbm
Data management helper code for the UK Biobank.
Language: Shell - Size: 54.7 KB - Last synced at: 4 months ago - Pushed at: almost 3 years ago - Stars: 10 - Forks: 4
GuLinLin/PIXANT
Rapid and accurate multi-phenotype imputation for millions of individuals
Size: 2.93 MB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 0
luyang-ai4med/POPDx
Python implementation of POPDx - Predictions for unseen, rare, and common labels.
Language: Python - Size: 1.14 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 9 - Forks: 2
carbocation/bgen
BGEN file format reader for parsing UK Biobank and other genotype data in Go
Language: Go - Size: 825 KB - Last synced at: 9 months ago - Pushed at: about 1 year ago - Stars: 1 - Forks: 0
RajLabMSSM/echoLD
echoverse module: LD downloading and processing
Language: R - Size: 1.81 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0
TemryL/UKB-Tools
Tools in Python to quickly start using the UK-BioBank dataset before UKB RAP.
Language: Python - Size: 34.2 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0
Nealelab/UKBB_ldsc
Sample code for ldsc analyses in UKBB
Language: CSS - Size: 40.5 MB - Last synced at: almost 2 years ago - Pushed at: about 2 years ago - Stars: 24 - Forks: 13
tjiagoM/gtex-transcriptome-modelling
Multilayer modelling of the human transcriptome and biological mechanisms of complex diseases and traits
Language: Jupyter Notebook - Size: 53 MB - Last synced at: almost 2 years ago - Pushed at: about 4 years ago - Stars: 9 - Forks: 2
rivas-lab/degas-risk
Polygenic risk modeling with latent trait-related genetic components
Language: Jupyter Notebook - Size: 410 MB - Last synced at: almost 2 years ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0
jlc-christie/axivity-ax3-tool
Command line tool written in c++ for easily extracting light and temperature data from Axivity AX3 accelerometers used in the UKBiobank
Language: C++ - Size: 2.78 MB - Last synced at: 4 months ago - Pushed at: over 6 years ago - Stars: 3 - Forks: 4
sarslancs/graph_saliency_maps
Graph saliency maps through spectral convolutional networks for brain mapping
Language: Python - Size: 58.6 MB - Last synced at: over 2 years ago - Pushed at: almost 7 years ago - Stars: 27 - Forks: 10
rivas-lab/mvpmm
MultiVariate Polygenic Mixture Model
Language: R - Size: 14.1 MB - Last synced at: over 1 year ago - Pushed at: over 5 years ago - Stars: 6 - Forks: 3
niekverw/ukpheno
Create binary traits for UKbio using ICD/OPER/medication/self reports/age of diagnosis/visit-dates etc). The current output includes variables on history, study visit, future, time-to-first-event, episode-duration. this is a starting point to construct your favorite trait in ukb. The code was written on the go, so not super clean code..
Language: R - Size: 64.7 MB - Last synced at: over 2 years ago - Pushed at: about 5 years ago - Stars: 3 - Forks: 3
adRn-s/ukbbgwas
Explore SNVs associated with any of UK BioBank Phenotypes, results were made publicly available by: http://www.nealelab.is/uk-biobank
Language: R - Size: 2.48 MB - Last synced at: about 1 hour ago - Pushed at: almost 4 years ago - Stars: 0 - Forks: 0
rivas-lab/ANGPTL7
Rare protein-altering variants in ANGPTL7 lower intraocular pressure and protect against glaucoma
Language: Jupyter Notebook - Size: 19.5 MB - Last synced at: 4 months ago - Pushed at: about 5 years ago - Stars: 0 - Forks: 0
brainhack-school2020/hannahkiesow_RiskyBrain
Predicting risky behavior in structural brain volume using the UK Biobank
Language: Python - Size: 935 KB - Last synced at: 16 days ago - Pushed at: about 5 years ago - Stars: 0 - Forks: 0
roshchupkin/pybgen
Light and fast pure python parser for bgen format (v.1.1; 1.2; 1.3)
Language: Python - Size: 9.77 KB - Last synced at: over 2 years ago - Pushed at: over 7 years ago - Stars: 2 - Forks: 0
vforget/ukb
UK Biobank Tools
Language: Awk - Size: 5.86 KB - Last synced at: over 2 years ago - Pushed at: almost 8 years ago - Stars: 1 - Forks: 1
