biostatistics

There are 60 repositories under biostatistics topic.

survex
ModelOriented / survex
Explainable Machine Learning in Survival Analysis
biostatistics brier-scores censored-data cox-model cox-regression explainable-ai explainable-machine-learning explainable-ml explanatory-model-analysis interpretable-machine-learning interpretable-ml machine-learning probabilistic-machine-learning r r-package shap survival-analysis time-to-event variable-importance xai
Language:R 116
BioFSharp / BioFSharp
Open source bioinformatics and computational biology toolbox written in F#. This is the core package containing type models and parsers/writers.
bioinformatics biostatistics datascience biology dataprocessing fsharp amino-acids nucleotides sequence-analysis docker bioinformatics-containers biocontainers
Language:F# 113
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 next-generation-sequencing
Language:mupad 99
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 93
JB-Statistical-Consulting / biostatistics
Biostatistics resources : reading list, RMarkdown notebooks, and more!
biostatistics datascience statistics
Language:HTML 80
ShixiangWang / Handbook_of_biostatistic_R
:green_book:handbook of biostatistic and R
r biostatistics notebook
Language:HTML 73
tlverse / tlverse-handbook
🎯 :closed_book: Targeted Learning in R: A Causal Data Science Handbook
targeted-learning causal-inference machine-learning tlverse statistics biostatistics causal-data-science causal-machine-learning data-science
Language:TeX 60
keaven / gsDesign
Group sequential design for clinical trials
r biostatistics clinical-trials design spending-functions boundaries
Language:R 51
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 47
r0f1 / sashelp
SAS code snippets
sas datascience statisics biostatistics
Language:SAS 39
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 39
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:HTML 35
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 32
stracquadaniolab / pygna
A Python package for gene network analysis
network-biology networkx enrichment-analysis pygna biostatistics bioinformatics
Language:Python 32
ellessenne / rsimsum
Analysis of simulation studies including Monte Carlo error
r simulation simulations statistics biostatistics simulation-study monte-carlo-error rstats
Language:R 30
gpaux / Mediana
Clinical Trial Simulations
r clinical-trials clinical-trial-simulations simulations biostatistics
Language:R 29
vubiostat / ps
Power and Sample Size Calculation
angular r studies biostatistics odds-ratios calculations
Language:Visual Basic 6.0 22
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.
biostatistics cancer gams mgcv
Language:TeX 21
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 18
raamana / missingdata
missing data handing: visualize and impute
missing-data data-science visualization biostatistics machine-learning missing-values dirty-data neuroscience epidemiology imputation
Language:Python 18
aejensen / TrendinessOfTrends
The Trendiness of Trends
statistics bayesian-inference gaussian-processes biostatistics stan
Language:TeX 17
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
NBISweden / workshop-mlbiostatistics
Geared towards life scientists wanting to be able to understand and use basic statistical and machine learning methods
biostatistics biostatistics-course statistics statistics-course statistics-learning workshop workshop-materials
Language:HTML 16
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 16
lebinary / 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 13
mikeroyal / Biostatistics-Guide
Biostatistics Guide
biostatistics biostatistical-computing bioinformatics
13
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 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
Helmut01 / replicateBE
Comparative BA-calculation for the EMA's Average Bioequivalence with Expanding Limits (ABEL)
bioequivalence biostatistics r r-package rstats
Language:R 9
stracquadaniolab / baghera
Bayesian Gene Heritability Analysis from GWAS summary statistics
gwas pymc3 bioinformatics bayesian-inference biostatistics
Language:Python 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
hikarimusic / BIOSTATS
An Intuitive App for Statistical Analysis
science-research statistics tkinter biostatistics data-analysis data-science data-visualization gui-application python biostats
Language:Python 8
ucla-biostat-212a / 2024winter
Course webpage for UCLA Biostat 212A (Statistical Machine Learning A)
data-science machine-learning biostatistics
Language:HTML 8
EPI_Shelves
Kin-Wang / EPI_Shelves
Something about epi methods, biostats, infectious diseases
epidemiology biostatistics r
Language:R 7
RCONIS / user2024-tutorial-gswep
useR! 2024 Tutorial Slides: Good Software Engineering Practice for R Packages
biostatistical-computing biostatistics gxp pharma r rstats rstats-package tutorial validation
Language:Lua 7