R: Integrative Inference of De Novo Cis-Regulatory Modules

# Integrative Inference of De Novo Cis-Regulatory Modules

## Documentation for package ‘BICORN’ version 0.1.0

- DESCRIPTION file
- User guides, package vignettes and other documentation

## Help Pages

A | TF-gene regulation strength matrix
alpha | Inverse-gamma distribution hyper-parameter alpha
A_old | TF-gene regulation strength matrix sampled from the previous round
A_sampling | Regulation Strength Sampling Function
baseline_sampling | Gene Baseline Expression Sampling Function
base_line | Gene baseline expression
base_line_old | Gene baseline expression sampled from the previous round.
beta | Inverse-gamma distribution hyper-parameter beta
BICORN | BICORN Algorithm Function
Binding_genes | Genes in the prior binding network
Binding_matrix | Prior TF-gene binding network
Binding_TFs | TFs in the prior binding network
C | TF-gene binding network
C_old | TF-gene binding network sampled from the previous round
C_prior | Prior TF-gene binding network
C_sampling_cluster | cis-Regulatory Module Sampling Function
data_integration | Data Initialization for BICORN
Exp_data | Gene expression data
Exp_genes | Genes in the expression data
sigmanoise_sampling | Fitting Residule Variance Sampling Function
sigma_A | Regulation strength variance
sigma_baseline | Variance of baseline gene expression.
sigma_noise | Variance of gene expression fitting residuals.
sigma_X | Transcription factor activity variance
X | Transcription factr activity matrix
X_old | Transcription factr activity matrix sampled from the previous round
X_sampling | Transcription Factor Activity Sampling Function
Y | Gene expression data used for module inference