gibbsSampler: This is the Gibbs sampler for CDSeq. 'GibbsSampler' returns...

In kkang7/CDSeq_R_Package: A Complete Deconvolution Method using Sequencing Data

Description

This is the Gibbs sampler for CDSeq. GibbsSampler returns estimated GEPs and cell type proportions.

Usage

gibbsSampler(
  ALPHA,
  BETA,
  mixtureSamples,
  T,
  NN,
  OUTPUT,
  processID,
  data_block_idx,
  CDSeq_tmp_log,
  write_2_file,
  verbose
)

Arguments

ALPHA	hyperparameter for cell type proportion.
BETA	hyperparameter for cell-type-specific GEPs.
mixtureSamples	bulk RNA-seq data in form of read counts.
T	number of cell types.
NN	number of MCMC iteration.
OUTPUT	MCMC progress output control.
processID	worker process ID when using parallel computing.
data_block_idx	index for data blocks from bulk RNA-seq input.
CDSeq_tmp_log	temporary log file recording the workers' jobs.
write_2_file	print to progress msg to CDSeq_tmp_log if it is 1, not printing otherwise.
verbose	if greater than or euqal to 1, then print working progress in console, otherwise do not print in console.

Value

random integers uniformly distributed in 0..(2^32 - 1).

kkang7/CDSeq_R_Package documentation built on May 4, 2021, 8:12 p.m.