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| DECIPHER-package | Database Enabled Code for Ideal Probe Hybridization Employing R |
| Add2DB | Add Data To A Database |
| BrowseDB | View A Database Table In A Web Browser |
| BrowseSequences | View Sequences In A Web Browser |
| ConsensusSequence | Create A Consensus Sequence |
| CreateChimeras | Creates Artificial Chimeras |
| DB2FASTA | Export Database Sequences to FASTA File |
| DECIPHER | Database Enabled Code for Ideal Probe Hybridization Employing R |
| DistanceMatrix | Calculate the Distance Between DNA Sequences |
| FindChimeras | Find Chimeras In A Sequence Database |
| FormGroups | Forms Groups By Rank |
| IdClusters | Cluster Sequences By Distance |
| IdConsensus | Create Consensus Sequences by Groups |
| IdentifyByRank | Identify By Taxonomic Rank |
| IdLengths | Determine the Number of Bases, Nonbases, and Width of Each Sequence |
| SearchDB | Obtain Specific Sequences from A Database |
| Seqs2DB | Add Sequences from Text File to Database |
| TerminalChar | Determine the Number of Terminal Characters |