LPEseq.var: A function evaluating local pooled error variance with...

In JungsooGIM/LPEseq: LPEseq: local-pooled-error test for RNA-seq data with a small number of replicates

Description

A function evaluating local pooled error variance with non-replicated data

Usage

LPEseq.var(y, n.bin = n.bin, df = df, d = d)

Arguments

y	expression data with non-replicate per each condition
n.bin	the number of quantile bins
df	degrees of freedom of smooth.spline() function
d	expression difference of LPEseq.outlier() function

Details

See the reference paper

Value

list	output of smooth.spline() function

Author(s)

Jungsoo Gim

References

J. Gim and T. Park, PLoS ONE under revision (http://bibs.snu.ac.kr/software/LPEseq)

Examples

## Generating a non-replicated simulation dataset
simData.norep <- generateData(n.deg=1000, n.rep=1)

## Normalization
normData.norep <- LPEseq.normalise(simData.norep[,-3])

## Generating LPE object
normData.var <- LPEseq.var(normData.norep, n.bin=100, df=10, d=1.2)

JungsooGIM/LPEseq documentation built on May 16, 2019, 10:04 a.m.