hypoData_ts


A hypothetical micoarray data consisting of eight rows (genes) and ten
columns (tissues). The expression patterns are quite similar to those
in figure 1 in Kadota et al., 2006.


datasets

This package provides a series of functions for performing
differential expression analysis from RNA-seq count data using
robust normalization strategy (called DEGES). The basic idea of
DEGES is that potential differentially expressed genes or
transcripts (DEGs) among compared samples should be removed
before data normalization to obtain a well-ranked gene list
where true DEGs are top-ranked and non-DEGs are bottom ranked.
This can be done by performing a multi-step normalization
strategy (called DEGES for DEG elimination strategy). A major
characteristic of TCC is to provide the robust normalization
methods for several kinds of count data (two-group with or
without replicates, multi-group/multi-factor, and so on) by
virtue of the use of combinations of functions in depended
packages.

Jianqiang Sun

TCC: Differential expression analysis for tag count data with
robust normalization strategies

hypoData_ts function

<code>hypoData_ts</code> is a matrix of dimension eight times ten.

Format

A hypothetical micoarray data consisting of eight rows (genes) and ten
columns (tissues). The expression patterns are quite similar to those
in figure 1 in Kadota et al., 2006.

hypoData_ts: A sample microarray data for detecting tissue-specific patterns.

Description

Usage

Arguments

Format

Details

References

Examples