create_meta_index_av: create_meta_index_av

In hemberg-lab/sctransfermap: sctransfermap for predicting cell type in single-cell data (RNA-seq and ATAC-seq)

Description

creating logistic regression model (data of iscell and mscell must be independent)

Usage

create_meta_index_av(iscell, mscell, gn_overlap_thr = 0.5, ncore = 1)

Arguments

iscell	attribute set
mscell	signature set
gn_overlap_thr	minimum gene overlap ratio of attribute in attribute set between query data
ncore	number of cores for multi-threading

Value

return list composed of (model_list, sname, zsl_tissue, meta_column_name)

• model_list: logistic regression model (composed of predicting cell and corresponding coefficients)

• sname: cell types that are used in each coefficient (T cell, B cell, fibroblast ....)

• zsl_tissue: tissue types that are used in logistic regression (Lung, Heart ...)

• meta_column_name: pseudo name of variables in logistic regression (Heart_cell1, Heart_cell2...)

Examples

meta_model <- create_meta_index_av(att_set, sig_set)

hemberg-lab/sctransfermap documentation built on Nov. 11, 2019, 6:23 a.m.