pois_mash_set_data: Create Data Object for Poisson MASH Analysis

In stephenslab/poisson.mash.alpha: Poisson Multivariate Adaptive Shrinkage

Create Data Object for Poisson MASH Analysis

Description

Create Data Object for Poisson MASH Analysis

Usage

pois_mash_set_data(Y, condition, si, subgroup)

Arguments

Y	J x N matrix of counts with features (e.g., genes) as rows and observations (e.g., cells) as columns.
condition	Factor with N entries and R levels in which condition[i] specifies the condition status of the ith observation.
si	Vector of size factors for each observation.
subgroup	Factor with R entries and M levels giving the subgroup status of each of R conditions. The default is no subgroups (that is, M = 1 level). If not missiing, or not set to NULL, the names of subgroup must match the levels of condition.

Value

A “pois.mash” data object for poisson mash analysis, including the following components:

X	J x R matrix of count data collapsed over conditions, with features as rows and conditions as columns.
s	Vector of length R adjusting for sequencing depth of each of R conditions.
subgroup	Vector with M levels specifying the subgroup status of each of R conditions.

stephenslab/poisson.mash.alpha documentation built on Dec. 11, 2023, 3:50 a.m.