GetDiagnosticParameters {grandR}

Describe parameters relevant to diagnostics

Description

Many of the diagnostics functions expect (optional or mandatory) parameters that are described by this function

Usage

GetDiagnosticParameters(data)

Arguments

data

a grandR object

Value

a list with

• orientation: Sense or Antisense, only relevant to mismatches for strand unspecific data

• category: all available categories (Exonic/Intronic, genomes). Note that this might differ from what is available from GeneInfo(data,"Category"), since Grand3 might not have estimated NTRs for all categories!

• label: which nucleoside analogs have been used

• model: which model (binom or tbbinom) to inspect

• estimator: which estimator (joint or separate NTRs were estimated for subreads)