BITFAM: BITFAM main function. BITFAM will infer the transcription...

In jaleesr/BITFAM: Bayesion Inference Transcription Factor activity Model

BITFAM main function. BITFAM will infer the transcription factor activities from single cell RNA-seq data based on the ChIP-seq data

Usage

BITFAM(data, species, interseted_TF = NA, scATAC_obj = NA, ncores, iter = 8000, tol_rel_obj = 0.005)
  
{
\item{data}{A matrix or dataframe, normalized single cell RNA-seq data}

\item{species}{mouse or human}

\item{interseted_TF}{Transcription factors of interests}

\item{scATAC_obj}{A preprocessed Seurat object of scATAC-seq data}

\item{ncores}{Number of CPU cores}

\item{iter}{Number of max iteration}

\item{tol_rel_obj}{The convergence tolerance on the relative norm of the objective}
}
{
sampling results of TF inferred activities and TF-gene weights
}
{
BITFAM main function. BITFAM will infer the transcription factor activities from single cell RNA-seq data based on the ChIP-seq data
}

jaleesr/BITFAM documentation built on Feb. 19, 2023, 2:37 p.m.