matthew's repositories
detect-NAHR
detecting non-allelic homologous recombination from short-read data
bioawk
BWK awk modified for biological data
centrifuge
Classifier for metagenomic sequences
CppNumericalSolvers
a lightweight C++17 library of numerical optimization methods for nonlinear functions (Including L-BFGS-B for TensorFlow)
dashr
R package for Dirichlet adaptive shrinkage and smoothing
DeepCoDA
Deep learning for personalized interpretability for compositional health data
deltacomp
Functions to analyse compositional data and produce confidence intervals for relative increases and decreases in the compositional components
DeSpaWN
Code of DeSpaWN ((https://doi.org/10.1073/pnas.2106598119)
KernelKnn
Kernel k Nearest Neighbors in R
lmcrCoda
Cellwise and rowwise robust linear regression with compositional covariates
recipes
Pipeable steps for feature engineering and data preprocessing to prepare for modeling
robregcc
Robust regression with compositional covariates
selbal
selbal: selection of balances for microbial signatures
zinLDA
R package for Zero-Inflated Latent Dirichlet Allocation
ZIR
Zero-Inflated (Wilcoxon and Kruskal–Wallis) Rank Test