Aggregate Lane-Split Technical Replicates

Frequently RNA-seq experiments are performed with technical replicates split across flow cell lanes. This generic facilitates quick aggregation of counts across the flow cells.

# S4 method for matrix
aggregateReplicates(object, pattern = "_L\\d+")

# S4 method for DESeqDataSet
aggregateReplicates(object, pattern = "_L\\d+")

Arguments

object

Object.
pattern

Grep pattern to match lane identifiers in sample name.

Value

Object of same class, with pooled technical replicates.

Note

DESeqDataSet is returned using DESeqDataSetFromMatrix().

Examples

# matrix

# NOT RUN {
aggregateReplicates(assay(bcb))
# }

# DESeqDataSet

# NOT RUN {
aggregateReplicates(dds)
# }