phenotype-prediction

There are 1 repository under phenotype-prediction topic.

transbioZI / BioMM
BioMM: Biological-informed Multi-stage Machine learning framework for phenotype prediction using omics data
biomm phenotype-prediction omics high-dimensional machine-learning gwas gene-expression dna-methylation epigenomics genomics transcriptomics random-forest svm elasticnetregression kegg-pathway go-pathway
Language:HTML 14
grimmlab / easyPheno
easyPheno: a model agnostic phenotype prediction framework
deep-learning genomic-selection machine-learning phenotype-prediction
Language:Python 11
foundation29org / RareCrowds
Package to serve public and freely-available data from rare disease patients.
open-data patient-data phenotype-ontologies phenotype-prediction public-data rare-disease rare-phenotypes
Language:Python 10
univieCUBE / phenotrex
Microbial Phenotype Prediction, successor to PICA, implemented with Python 3.7 and scikit-learn
machine-learning bioinformatics svm xgboost xgb phenotype-prediction ecological-roles sequence-analysis metagenomics data-driven comparative-genomics
Language:Python 10
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..
icd-10 icd-9 phenotype-prediction r uk-biobank ukbiobank
Language:R 6
ann081993 / ras
Relative adiponectin score (RAS) model
phenotype-prediction
Language:R 2
grimmlab / phenotype_prediction
A comparison of classical and machine learning-based phenotype prediction methods on simulated data and three plant species
arabidopsis-thaliana blup deep-neural-networks genomic-selection machine-learning phenotype-prediction plant-phenotyping
Language:Jupyter Notebook 2
ivanwilliammd / iderare-pheno
IdeRare Phenotype Analysis suite : Convert Indonesia SATUSEHAT terminology (SNOMED-CT, LOINC, ICD-10) to Rare Disease Terminology / Ontology (HPO, OMIM) and find the likelihood differential gene and disease explaining patient phenotype
phenotype phenotype-exchange-format phenotype-genotype-information phenotype-ontologies phenotype-prediction rare-disease
Language:Jupyter Notebook 2
omid-arhami / topolow
Topological optimization for continuous phenotype mapping. When you have cross-reactivity or binding affinity measurements between some pairs of items in the data, with even large proportions of missing data, use Topolow to find the full coordinates of all items, in a space with optimal dimensionality.
antigenic-cartography imputation-algorithm multidimensional-scaling phenotype-prediction
Language:R 2
robail-yasrab / RSML-to-Image
rsml python plant phenotyping image annotataion gt rootnav rootnav2 image-processing image-segmentation image-classification phenotype phenotype-prediction plants root root-phenotyping
Language:Python 2
ivanwilliammd / IDeRare
Indonesia Exome Rare Disease Variant Discovery Pipeline. Phenotype analysis part available on Streamlit and PyPi
exome-sequencing-analysis gene-prioritization phenotype-exchange-format phenotype-genotype-information phenotype-ontologies phenotype-prediction rare-disease rare-variant-analysis
Language:Jupyter Notebook 1
LeibnizDSMZ / bacdive-AI
Apply AI-based trait prediction from BacDive to your own genomes.
bacdive machine-learning models phenotype-prediction
Language:Python 1
quantitative_mutations
pyubero / quantitative_mutations
A class based on COBRApy to handle quantitative mutations on metabolic models.
cobrapy phenotype-prediction
Language:Jupyter Notebook 1
superphy / kmer
Using machine learning to predict E. coli phenotypes
ecoli phenotype-prediction
Language:TeX 1
Yun-Ching-Chen / GIBI
Bayesian Network Model Predicting Personal Phenotypes using Genome-Sequencing Data
phenotype-prediction genome-sequencing bayesian-inference
Language:Python 1
FloFlo93 / PICA-to-go
Phenotype prediction pipeline
machine-learning bioinformatics phenotype-prediction
Language:Java 0
gomezlab / kinotypeClusteringAndRegression
Joint Repository of GR Metrics Regression and Kinase Interaction Network (KIN) Clustering
systems-biology graph-clustering kinome kinases protein-protein-interaction phenotype-prediction proteomics
Language:Jupyter Notebook 0
GenomeNet / microbeLLM
MicrobeLLM is a Python tool that harnesses the power of large language models (LLMs) for microbial phenotype prediction.
llm phenotype-prediction
Language:Python
samanta-anupam / pheno-predictor
Comp Bio fall 2017 project
deep-learning artificial-neural-networks xgboost phenotype-prediction dimensionality-reduction
Language:Jupyter Notebook

phenotype-prediction

transbioZI / BioMM

grimmlab / easyPheno

foundation29org / RareCrowds

univieCUBE / phenotrex

niekverw / ukpheno

ann081993 / ras

grimmlab / phenotype_prediction

ivanwilliammd / iderare-pheno

omid-arhami / topolow

robail-yasrab / RSML-to-Image

ivanwilliammd / IDeRare

LeibnizDSMZ / bacdive-AI

pyubero / quantitative_mutations

superphy / kmer

Yun-Ching-Chen / GIBI

FloFlo93 / PICA-to-go

gomezlab / kinotypeClusteringAndRegression

GenomeNet / microbeLLM

samanta-anupam / pheno-predictor