cmalign                 Multiple alignment using Infernal
gregexpr                Extended 'gregexpr' with substring retrieval
iupac2regex             Ambiguity symbol conversion
microseq-package        Basic Biological Sequence Analysis
msaTrim                 Trimming multiple sequence alignments
msalign                 Multiple alignment
muscle                  Multiple alignment using MUSCLE
plot.Fasta              Plotting and summary of 'Fasta' objects
plot.Fastq              Plotting and summary of 'Fastq' objects
readFasta               Read and write FASTA files
readFastq               Read and write FASTQ files
reverseComplement       Reverse-complementation of DNA
translate               Translation according to the standard genetic
                        code
