Description Usage Arguments Value
View source: R/preprocessing.R
Initialized the spaceST object from an expression matrix with genes as rows and array coordinates as columns. When the object is initialized, some optional filtering settings can be applied to remove genes and/or spots of low quality.
1 2 | CreatespaceSTobject(raw.data, unique.genes = 0, min.exp = 0,
min.features = 0, filter.genes = NULL, delimiter = "_")
|
raw.data |
A list of expression matrices/data.frames with genes as rows and feature coordinates as columns. Headers should be formatted with a unique symbol, x, and y coordinate seperated by a delimiter. |
unique.genes |
The lowest number of unique genes allowed in a feature. |
min.exp |
Integer value specifying the lowest expression value allowed at least min.features number of features. |
min.features |
Integer value specifying the lowest number of features with at least min.exp. |
filter.genes |
A character vector specifying genes that should be filtered from the expression data. |
delimiter |
Delimiter specifying header format. |
A spaceST object containing a merged expression matrix of gene expression counts.
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