exprfilter: subset ballgown objects using an expression filter

In ballgown: Flexible, isoform-level differential expression analysis

Description

Create a new ballgown object containing only transcripts passing a mean expression filter

Usage

exprfilter(gown, cutoff, meas = "FPKM")

Arguments

gown	a ballgown object
cutoff	transcripts must have mean expression across samples above this value to be included in the return
meas	how should transcript expression be measured? Default FPKM, but can also be 'cov'.

Value

A new ballgown object derived from gown, but only containing transcripts (and associated exons/introns) with mean meas greater than cutoff across all samples.

See Also

subset

Examples

  data(bg)
  # make a ballgown object containing only transcripts with mean FPKM > 100:
  over100 = exprfilter(bg, cutoff=100)  

ballgown documentation built on Nov. 8, 2020, 5:46 p.m.