biostatistics

There are 53 repositories under biostatistics topic.

CSBiology / BioFSharp
Open source bioinformatics and computational biology toolbox written in F#.
bioinformatics biostatistics datascience biology dataprocessing fsharp amino-acids nucleotides sequence-analysis docker bioinformatics-containers biocontainers
Language:F# 105
survex
ModelOriented / survex
Explainable Machine Learning in Survival Analysis
brier-scores cox-regression explainable-ai explainable-machine-learning explainable-ml explanatory-model-analysis interpretable-machine-learning interpretable-ml machine-learning shap survival-analysis cox-model probabilistic-machine-learning r-package censored-data time-to-event xai biostatistics variable-importance r
Language:R 89
Griffan / VerifyBamID
VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
genetics dna-sequences qc-analysis contamination bioinformatics biostatistics bam cram
Language:mupad 83
MI2DataLab / survshap
SurvSHAP(t): Time-dependent explanations of machine learning survival models
variable-importance biostatistics brier-scores cox-model cox-regression explainable-ai probabilistic-machine-learning shap survival-analysis time-to-event explainable interpretable machine learning cph model censored survival machinelearning xai
Language:Jupyter Notebook 71
ShixiangWang / Handbook_of_biostatistic_R
:green_book:handbook of biostatistic and R
r biostatistics notebook
Language:HTML 62
tlverse / tlverse-handbook
🎯 :closed_book: Targeted Learning in R: A Causal Data Science Handbook
biostatistics causal-data-science causal-inference causal-machine-learning data-science machine-learning statistics targeted-learning tlverse
Language:TeX 55
keaven / gsDesign
Group sequential design for clinical trials
r biostatistics clinical-trials design spending-functions boundaries
Language:R 48
r0f1 / sashelp
SAS code snippets
sas datascience statisics biostatistics
Language:SAS 38
raamana / confounds
Conquering confounds and covariates: methods, library and guidance
confound covariates machine-learning cross-validation scikit-learn statistics regression classification neuroimaging neuroscience biostatistics confounding combat deconfounding
Language:Python 38
ben-laufer / DMRichR
A R package and executable for the preprocessing, statistical analysis, and downstream testing and visualization of differentially methylated regions (DMRs) from CpG count matrices (Bismark cytosine reports)
bioinformatics dna-methylation wgbs cpg biostatistics dmrs workflow rrbs em-seq tidyverse whole-genome-bisulfite-sequencing
Language:R 37
stracquadaniolab / pygna
A Python package for gene network analysis
network-biology networkx enrichment-analysis pygna biostatistics bioinformatics
Language:Python 32
graemeleehickey / joineRML
R package for fitting joint models to time-to-event data and multivariate longitudinal data
longitudinal-data regression-models multivariate-longitudinal-data cox r-package survival joint-models rcpp armadillo biostatistics statistics clinical-trials multivariate-data multivariate-analysis prediction dynamic
Language:R 30
selbouhaddani / OmicsPLS
R package for High dimensional data analysis and integration with O2PLS!
bioinformatics biostatistics omics multi-omics data-integration principal-component-analysis pca partial-least-squares-regression pls latent-variable-models
Language:R 28
ellessenne / rsimsum
Analysis of simulation studies including Monte Carlo error
r simulation simulations statistics biostatistics simulation-study monte-carlo-error rstats
Language:R 26
gpaux / Mediana
Clinical Trial Simulations
r clinical-trials clinical-trial-simulations simulations biostatistics
Language:R 24
aimundo / GAMs-biomedical-research
Repository that contains all the data, code and manuscript files for a paper that explores the use of GAMs in biomedical research.
mgcv biostatistics cancer gams
Language:TeX 18
raamana / missingdata
missing data handing: visualize and impute
biostatistics data-science dirty-data epidemiology imputation machine-learning missing-data missing-values neuroscience visualization
Language:Python 17
aejensen / TrendinessOfTrends
The Trendiness of Trends
statistics bayesian-inference gaussian-processes biostatistics stan
Language:TeX 16
BSEL-UC3M / pMoSS
pMoSS (p-value Model using the Sample Size) is a Python code to model the p-value as an n-dependent function using Monte Carlo cross-validation. Exploits the dependence on the sample size to characterize the differences among groups of large datasets
decay python statistics monte-carlo-sampling p-value nhst hypothesis-testing group-comparison big-data bioinformatics-analysis biostatistics monte-carlo
Language:Python 16
graemeleehickey / joineR
R package for fitting joint models to time-to-event and longitudinal data
statisics statistical-methods longitudinal-data survival-analysis r biostatistics joiner survival cox repeated-measures competing-risks time-to-event repeated-measurements r-package
Language:R 16
lebinh190998 / genome-browser
Genome browser to visualize and analyze genomic data
bioinformatics biology biostatistics bioinformatics-analysis javascript interactive interactive-visualizations interactive-storytelling interactive-map react reactjs c-plus-plus genomics genome genomics-visualization genome-annotation genomes
Language:JavaScript 11
vubiostat / ps
Power and Sample Size Calculation
angular r studies biostatistics odds-ratios calculations
Language:VBA 11
hruffieux / locus
locus R package - Large-scale variational inference for variable selection in sparse multiple-response regression
variable-selection joint-models high-dimensional-data sparse-regression variational-inference biostatistics
Language:R 10
stracquadaniolab / baghera
Bayesian Gene Heritability Analysis from GWAS summary statistics
gwas pymc3 bioinformatics bayesian-inference biostatistics
Language:Python 9
vanderLaan-Group / vanderLaan-lab.org
Website and blog for the research group of Mark J. van der Laan
statistics biostatistics causal-inference machine-learning targeted-learning causality blog
Language:HTML 9
CSBiology / TMEA
Thermodynamically Motivated Enrichment Analysis (TMEA) is a new approach to gene set enrichment analysis.
gsea genes biostatistics bioinformatics f-sharp enrichment-score deedle plotly
Language:F# 8
giupardeb / EpiMethEx
EpiMethEx (Epigenetic Methylation and Expression), a R package to perform a large-scale integrated analysis by cyclic correlation analyses between methylation and gene expression data.
gene-expression methylation epigenetics cancer biostatistics dataset data-filtering r bioinformatics
Language:R 8
Helmut01 / replicateBE
Comparative BA-calculation for the EMA's Average Bioequivalence with Expanding Limits (ABEL)
bioequivalence biostatistics r r-package rstats
Language:R 8
ucla-biostat-212a / 2024winter
Course webpage for UCLA Biostat 212A (Statistical Machine Learning A)
data-science machine-learning biostatistics
Language:HTML 8
aysuvorov / medstats
Collection of scripts and modules for biostatistics and data science simple automation for research process.
biostatistics medical-statistics clinical-trials sample-size sample-size-calculation statistics-library logistic logistic-regressions
Language:Jupyter Notebook 7
SACEMA / inctools
Incidence Estimation Tools
biomarkers biostatistics cran epidemiology hiv incidence incidence-estimation incidence-inference infectious-diseases statistics
Language:R 6
simonguld / CellSegmentationTracker
A Python module intended to make cell segmentation, tracking and subsequent (mostly biophysical) statisticial analysis easy
active-matter bioinformatics-pipeline biophysics biostatistics cell-segmentation cell-tracking
Language:Jupyter Notebook 6
vested
statbiscuit / vested
Virtual Experiments to Teach Experimental Design
virtual-experiments experimental-design biostatistics rshiny
Language:R 6
tlverse / sl3_lecture
:notebook: 💪 An introductory workshop lecture on ensemble machine learning with pipelines using the sl3 R package
machine-learning statistics biostatistics applied-statistics r demo data-science statistical-computing
Language:JavaScript 6
ucla-biostat-203b / 2024winter
biostatistics data-science machine-learning
Language:HTML 6
wtwt5237 / raku-for-bioinformatics
Raku/Perl6 resources for bioinformatics
rakudo perl6 bioinformatics raku benchmark tutorial biostatistics machinelearning
Language:Raku 6