ChIPtest (version 1.0)

ChIPtest_1.0-package: Nonparametric Methods for Identifying Differential Enrichment Regions with ChIP-seq Data

Description

Nonparametric Tests to identify the differential enrichment region for two conditions or time-course ChIP-seq data. It includes: data preprocessing function, estimation of a small constant used in hypothesis testing, a kernel-based two sample nonparametric test, two assumption-free two sample nonparametric test.

Details

Package:

ChIPtest_1.0

Type:

Package

Version:

1.0

Date:

2016-07-07

License:

GPL ( >=2

LazyLoad:

yes

References

Qian Wu, Kyoung-Jae Won and Hongzhe Li. (2015) Nonparametric Methods for Identifying Differential Enrichment Regions with ChIP-seq Data. $Cancer Informatics$,14 (Suppl 1), 11-22

Examples

data(data1)
data(data4)
Data1=NormTransformation(data1)
Data4=NormTransformation(data4)
tao=est.c(Data1, Data4, max1=5, max4=5)
band=54
TS=TS_twosample(Data1, Data4, tao, band, quant=c(0.9,0.9,0.9))