Given a Bascet, produce a matrix showing for each combinatorial barcode, how many times it occurs across the cells. Presented as a 96-well plate matrix

This command assumes that cells are named as follows: well1_well2_well3_well4, where e.g. well1 is in format G12

Usage

AtrandiBarcodeStats(
  bascetRoot,
  inputName = "debarcoded",
  bascetInstance = GetDefaultBascetInstance()
)

Arguments

bascetRoot

The root folder where all Bascets are stored

inputName

Name of input shard (should be debarcoded reads)

bascetInstance

A Bascet instance

Value

Matrix showing coverage of each barcode