prepare_clustergram_data: Process hit data for hierarchical clustering.

In brandonsie/phipcc: Generate Case-Control Reports from PhIP-seq Data

Description

Process hit data for hierarchical clustering.

Usage

prepare_clustergram_data(case_rcp, hit_list, binarize_clustergram = TRUE,
  rcp_thresh = 0.95, sample_field_delimiter = ".",
  sample_key_field = 4, AVARDA_RCP = NA)

Arguments

case_rcp	RCP data from RCPGenerator or compute_rcp_list.
hit_list	Subset candidate data from filter_hits or filter_hits_list.
binarize_clustergram	Logical controlling whether or not clustergram will be binarized above/below rcp_thresh.
rcp_thresh	Threshold value to binarize against if binarize_clustergram == TRUE.
sample_field_delimiter	Field delimiter in sample names (column names of case_rcp.)
sample_key_field	Which field(s) to retrain from sample names when separated by sample_field delimiter.
AVARDA_RCP	Optional AVARDA breadth case RCP data to add to clustergram.

brandonsie/phipcc documentation built on June 2, 2020, 6:19 a.m.