CellTagWhitelistFiltering: CellTag Whitelist Filtering Function

Description Usage Arguments Value Examples

View source: R/CellTagWhitelistFiltering_Function.R

Description

This function conducts whitelist filtering such that only CellTags with count number over their certain percentile would be considered for clone calling

Usage

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CellTagWhitelistFiltering(count.sorted.table, percentile, output.dir,
  output.count.file, save.output = TRUE)

Arguments

count.sorted.table

The count table for all CellTags with first column being CellTag and second being counts.

percentile

A fraction cutoff percentile for filtering the CellTags e.g. 0.9 for 90th percentile

output.dir

Which directory would you like to store these files?

output.count.file

Which CSV filename would you like to save to for the filtered count table? Default to NULL. If NULL but save.output = TRUE, automatic names will be generated and used for storage

save.output

Would you like to save your whitelisted counts to file? Default to TRUE

Value

Whitelisted CellTag count table

Examples

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CellTagWhitelistFiltering("data.txt", 0.9, "~/Desktop/", "My_Favourite_Whitelist.csv")

morris-lab/CloneHunter documentation built on Jan. 6, 2019, 3:04 a.m.