getSearchPatterns: getSearchPatterns

In AlexJanse/cMut: Identify Clustered Single Nucleotide Mutations and Link Them to Mutational Patterns

Description

A function to get the default search pattern table

Usage

getSearchPatterns(reverse = TRUE, renameReverse = FALSE,
  asTibble = TRUE)

Arguments

reverse	A Boolean if the reverse complementend also needed to be added.
renameReverse	A Boolean if the id of the process needs to be renamed. This has the effect on the cMut functions that it will no longer treat the reverse complement and non reverse complement as the same.
asTibble	A Boolean if the returned table needs to be a tibble. Else it will sent a data.frame.

Note

Please note that if there are patterns where the reverse complement is the same as the original sequence then the reverse complement won't be made. This is done to avoid double counting when renameReverse = TRUE is used.

See Also

See mutationPatterns help page for full description about the columns and values.

AlexJanse/cMut documentation built on May 25, 2019, 4 a.m.