Simple Transcriptome Meta-Analysis for Identifying Stress-Responsive Genes

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Documentation for package ‘SRscore’ version 0.1.2

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

calcSRratio	Calculate the Stress Response ratio (SRratio)
calcSRscore	Create a Data Frame of SRscore
directly_calcSRscore	Aggregate the results of the three functions into a single list
expand_by_group	Create a data frame from all combinations between two specified variables within each group
find_diffexp	Find the expression ratio for each experimental sample for the specified gene.
HNscore	Reproducing HN-scores from HN-ratios Using the SRscore Package
logHNratioHypoxia	Reproducing HN-scores from HN-ratios Using the SRscore Package
MetadataABA	Metadata of abscisic acid stress microarray dataset in _Arabidopsis thaliana_
MetadataHypoxia	Metadata of Hypoxia stress RNA-Seq dataset in _Arabidopsis thaliana_
plot_SRscore_distr	Plot the Distribution of SRscore Values
plot_SRscore_rank	Plot Ranked SRscore Values with Threshold-Based Highlighting
plot_SRscore_top	Barplot of Top Genes Ranked by Absolute SRscore
sample_pair_test	Test data to create data frames from all combinations between two specified variables within each group using sample data
SRGA	Test data for the SRscore package
SRratio_test	Test data for calculating SRratio using sample data
SRscore_test	Test data for calculating SRscore using sample data
TPMHypoxia	Hypoxia stress RNA-Seq data in _Arabidopsis thaliana_
TranscriptomeABA	Abscisic acid stress microarray dataset in _Arabidopsis thaliana_