Package: CovidMutations 0.1.3

Introduction | Downloading and preparing the data | Annotate the mutational events | Merge neighboring events of SNP, insertion and deletion | Provide effects of each SNP, insertion and deletion | Mutation statistics and profile | Basic descriptions for the mutational events. | The most frequent mutational events for each protein | Preprocess nucmer object to add group information | Global SNP profiling in virus genome | Global protein mutational events profiling | Plot mutation distribution and mutation statistics | Plot mutation counts for certain genes | Assays efficiency | Calculate the mutation ratio using different assays | Bacth assay analysis for last five Nr of primers | Detection of co-occurring mutations using double-assay | Packages used | References