/// <summary>
/// Genes that can be found in the cleavage efficiency files and the reactivity file.
/// </summary>
public static string[] GetValidNamesAll()
{
if (File.Exists(Config.WorkingFolder + "genes_have_all.txt"))
{
return(FileExtension.ReadList(Config.WorkingFolder + "genes_have_all.txt"));
}
string[] csNames = GetValidNames();
string[] eNames = Degradome.GetValidNames();
string[] rNames = Reactivity.GetValidNames();
string[] intersection = csNames.Intersect(eNames).Intersect(rNames).ToArray();
FileExtension.SaveList(Config.WorkingFolder + "genes_have_all.txt", intersection);
return(intersection);
}
public static void GenerateAll()
{
GetValidNamesAll();
Degradome.ToCleavageEfficiency();
Reactivity.Serialise();
Gene.Serialise();
GenerateCleavegeSites();
GenerateCleavageSiteFiles();
GenerateAverageReactivity();
GenerateStructureFiles();
// step 9
GenerateRnaStructPlots();
// step 10
RnaDistancePreprocess.Process();
}