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biomarkers

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markwk /awesome-biomarkers

Curated List of Biomarkers, Blood Tests, and Blood Tracking

awesome quantified-self blood awesome-list quantified biomarker-discovery biomarkers vitamin blood-test blood-tracking

UpdatedSep 15, 2021

genular /pandora

PANDORA 💻

data-science machine-learning data-mining bioinformatics clustering systems-biology data-visualization drug-discovery data-integration microbiome transcriptomics predictive-analytics pandora tsne umap biomarkers genomic-data-analysis clinical-data unsupervised-machine-learning

UpdatedMar 9, 2025
Vue

ai-med /quickNAT_pytorch

PyTorch Implementation of QuickNAT and Bayesian QuickNAT, a fast brain MRI segmentation framework with segmentation Quality control using structure-wise uncertainty

machine-learning quality-control ai computer-vision deep-learning pytorch uncertainty medical-imaging segmentation bayesian convolutional-neural-networks mri-images brain-imaging neuroanatomy biomarkers

UpdatedJan 7, 2021
Python

rsinghlab /pyaging

A Python-based compendium of GPU-optimized aging clocks.

clock torch aging biomarkers

UpdatedMar 8, 2025
Jupyter Notebook

mad-lab-fau /BioPsyKit

A Python package for the analysis of biopsychological data.

python statistics psychology biomarkers biosignals questionnaires cortisol health-psychology stress-protocols amylase ecg-processing acute-stress

UpdatedMar 19, 2025
Python

darya-chyzhyk /confound_prediction

Confound-isolating cross-validation approach to control for a confounding effect in a predictive model.

machine-learning cross-validation neuroscience prediction confounding statistical-tests biomarkers deconfounding confound subsampling

UpdatedAug 30, 2019
Python

OmicSelector

kstawiski /OmicSelector

OmicSelector - Environment, docker-based application and R package for biomarker signiture selection (feature selection) & deep learning diagnostic tool development from high-throughput high-throughput omics experiments and other multidimensional datasets. Initially developed for miRNA-seq, RNA-seq and qPCR.

data-science data-mining bioinformatics rna-seq r deep-neural-networks deep-learning neural-network docker-image next-generation-sequencing variable-selection feature-selection bioinformatics-pipeline classification r-package omics biomarker-discovery qpcr mirna biomarkers

UpdatedNov 18, 2024
R

eminSerin /NBS-Predict

A prediction-based extension of network-based statistics.

machine-learning neuroimaging connectome biomarkers nbs-predict

UpdatedJan 29, 2025
MATLAB

KibromBerihu /ai4elife

This data-centric AI repository implements a robust deep learning method (LFBNet) for fully automated tumor segmentation in whole-body [18]F-FDG PET/CT images.

ai deep-learning medical-imaging pet data-analysis survival-analysis image-segmentation biomarkers fdg-pet lymphoma data-centric-ai whole-body-segmentation automated-pet-segmentation pet-segmentation pet-ct-segmentation

UpdatedMay 29, 2024
Python

ComputationalAgingLab /ComputAge

A library for full-stack aging clocks design and benchmarking.

machine-learning bioinformatics epigenetics aging biomarkers life-science aging-b

UpdatedJan 29, 2025
Jupyter Notebook

NCBI-Hackathons /MR_BACOn

Mendelian Randomization with Biomarker Associations for Causality with Outcomes

gwas causality-analysis associations causal-inference biomarkers metabolites mendelian-randomization

UpdatedDec 7, 2018
R

jakelever /civicmine

Text mining cancer biomarkers for the CIVIC database

text-mining cancer biomarkers precision-medicine bionlp

UpdatedMar 31, 2023
Python

pcastellanoescuder /FoodBiomarkerOntology

🚀 Food-Biomarker Ontology defines the relationships between foods and their associated metabolites (biomarkers) through a formal ontology

ontology knowledge-graph metabolomics ontologies nutrition foods biomarkers obofoundry

UpdatedMay 3, 2022
Python

xinglab-ai /genomap

Cartography of Genomic Interactions Enables Deep Analysis of Single-Cell Expression Data (Nature Communications, 2023)

visualization bioinformatics deep-learning genomics tabular-data single-cell biomarker-discovery classification-algorithm biomarkers bioinfomatics-pipeline genomic-data-analysis genomics-visualization regression-algorithms data-classification bioinformatics-tool trajectory-inference cell-annotation multi-omic-integration

UpdatedMay 27, 2024
Python

caranathunge /promor

A comprehensive R package for label-free proteomics data analysis and modeling

machine-learning r modeling rstats proteomics mass-spectrometry r-package differential-expression biomarkers lfq

UpdatedJul 21, 2023
R

shedding-hub /shedding-hub

Data and statistical models for biomarker shedding.

biomarkers wastewater-based-epidemiology

UpdatedMar 31, 2025
Python

wejlab /TBSignatureProfiler

Profile RNA-seq data using published TB gene signatures

tuberculosis biomarkers bioconductor-package gene-signatures

UpdatedDec 8, 2024
R

mathcom /G2Vec

G2Vec: Distributed gene representations for identification of cancer prognostic genes (Scientific Reports)

bioinformatics deep-learning network-analysis protein-protein-interaction biomarkers node2vec cancer-prognosis

UpdatedMar 13, 2020
Python

jbpauly /fasting

A Python package to interact with fasting logs from apps like Zero.

python jupyter pytest metabolism fasting biomarkers metabolic-health

UpdatedMar 3, 2021
Python

deeplearner0731 /BioPred

R package BioPred

subgroups causal-inference biomarkers precision-medicine

UpdatedJun 7, 2024
R

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