Changes in version 1.0.0 o Summary and Sample Diagnostics o Differential Expression Plots and Analysis using LIMMA o Principal Component Analysis and plots to check batch effects o Heatmap plot of gene expressions o Median Correlation Plot o Circular Dendrogram clustered and colored by batch and condition o Shape Analysis for the distribution curve based on HTShape package o Batch Adjustment using ComBat o Surrogate Variable Analysis using sva package o Function to generate simulated RNA-Seq data