# A compositional model to assess expression changes from single-cell rna-seq data

## Documentation for package ‘scDDboost’ version 1.13.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

scDDboost-package | A compositional model to assess expression changes from single-cell rna-seq data
calD | calculate distance matrix
clusHelper | function to get intra and inter distance for clusters
detK | determine the number of clusters
EBS | accelerated empirical bayesian
extractInfo | extract count matrix from SingleCellExperiment object
gCl | gene_level cluster
genRClus | generate random clusterings
getDD | index of DD genes under FDR control
getSizeofDD | number of DD genes under FDR control
getZ1Z2 | function to get counts of cluster sizes at two conditions
gRef | generate reference matrix
isRef | check refinement relation between two clusters
LL | likelihood function for hyperparameters estimation
lpt1t2 | log likelihood of z1,z2 given t1,t2
lpzgt | log likelihood of aggregated multinomial counts z given aggregated proportions t
mdd | posterior of proportion change given mixture double dirichlet prior
pat | generating partition patterns
pdd | calculate posterior probabilities of a gene to be differential distributed
pddAggregate | function to aggregate intermediate results and get prob of DD
rwMle | MLE for random weighting parameter
scDDboost | A compositional model to assess expression changes from single-cell rna-seq data
sim_dat | scDDboost