exprfilter: subset ballgown objects using an expression filter

Description Usage Arguments Value See Also Examples

View source: R/exprfilter.R

Description

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

Usage

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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

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

ballgown documentation built on Aug. 1, 2017, 2:01 a.m.