# Metrics for Benchmarking scRNA-Seq Batch Correction

## Documentation for package ‘scPOP’ version 0.1.0

- DESCRIPTION file.

## Help Pages

ari | Adjusted Rand Index
calc_sumZscore | Calc_sumZscore
compute_simpson_index | Compute the Local Inverse Simpson Index (LISI)
lisi | Compute Local Inverse Simpson's Index (LISI)
nmi | Normalized mutual information (NMI)
run_all_metrics | Running All Metrics
sceiad_subset_data | Example scRNA-seq data from the single cell eye in a disk(sceiad) the original data set this was pulled from can be found at this link 'https://hpc.nih.gov/~mcgaugheyd/scEiaD/colab/scEiaD_all_anndata_mini_ref.h5ad'
scPOP | scPOP: Metrics for Benchmarking scRNA-Seq Batch Correction
silhouette_width | batch_sil
stratified_sample | Generate a stratified subsample for a vector given a grouping