loadCounts: Loads expression data from .h5 count files. Only samples with...

In ctlab/phantasus: Visual and interactive gene expression analysis

Loads expression data from .h5 count files. Only samples with counted expression are kept. If es already containts expression data it is returned as is.

Description

Loads expression data from .h5 count files. Only samples with counted expression are kept. If es already containts expression data it is returned as is.

Usage

loadCounts(es, counts_dir)

Arguments

es	ExpressionSet from GEO to check for expression in ARCHS4/dee2 or other h5 files
counts_dir	directory with .h5 files collections. There must be meta.rda file in counts_dir and each collection's sub directory must have meta.txt file with description. Also counts_dir must contain counts_priority.txt file.

Value

either original es or an ExpressionSet with loaded count data from ARCHS4

ctlab/phantasus documentation built on Oct. 11, 2024, 4:11 p.m.