Package index • PICsnATAC

All functions

DAR_by_LRT(): Compute p value for DAR test between two cell types

PIC_counting(): Count snATAC-seq data matrix with Paired Insertion Counting (PIC)

count_peaks(): Count number of paired insertions in each peak

data_frame_to_GRanges(): convert peak_set into GRanges object if input is a data.frame

get_r_by_ct_mat_pq(): Get region (peak) by cell type matrix and per cell capturing rate

load_fragments(): Function for loading fragment files and filter by cell barcodes

obs_to_insertion_ME(): Moment estimator for insertion rates from observed values

obs_to_insertion_MLE_lam(): Calculate insertion rate from observed PIC counts

obs_to_insertion_MLE_obj(): Calculate the optimal loss from observed PIC counts