Capturing hidden regulation based on noise change of gene expression level from single cell RNA-seq in yeast

<strong>CreateBASiCS.R</strong><br> Create BASiCS chain objects, which include mean and noise data, from the raw count matrix. This step takes 10~20 hours. <strong>Main.R</strong> <br> Generate figures in the main results. <strong>FunctionSetting.R,</strong> <strong>DifferenceTestAll.R </strong>and <strong>DifferenceTestClustest.R</strong> are executed in this script. <strong>STP12_detail_analysis.Rmd</strong><br> Output results mentioned in the discussion. Code is placed within the chunk.<br> Please make sure to execute this after Main.R . <strong>SupFig1Generator.R</strong><br> Generate supplement figure 1 <strong>YeastGeneNameList.csv</strong><br> Data that convert ORF id to the common name<br> This data includes 3 columns, Name, ORF, and SGD.<br> - Name: Common name (e.g., TSC3)<br> - ORF: ORF id with Yeastract format (e.g., YBR058C.A)<br> - SGD: ORF id with SGD format (e.g., YBR058C-A) <br> <strong>GeneticInteraction(ORF).csv</strong><br> Genetic interaction data downloaded from Yeastract. This data includes two-column, V1 and V2.<br> The interaction is described as two matrices such as V1 output to V2. <strong>NoiseChangeGeneList</strong><br> This folder contains data required for generating tables 1 and S2.