Improve An Existing Alignment By Adjusting Gap Placements
Align Two Sets of Aligned Sequences in a Sequence Database
Align Sequences By Their Amino Acid Translation
Create a Matrix Representation of a Microarray
Predict the Hybridization Efficiency of Probe/Target Sequence Pairs
Predict Thermodynamic Parameters of Probe/Target Sequence Pairs
Predict Amplification Efficiency of Primer Sequences
Compute cophenetic distances on dendrogram objects
Corrects Frameshift Errors In Protein Coding Sequences
Export Database Sequences to a FASTA or FASTQ File
Tools for curating, analyzing, and manipulating biological sequences
Design a Set of DNA Microarray Probes for Detecting Sequences
Design PCR Primers Targeting a Specific Group of Sequences
Design FISH Probes Targeting a Specific Group of Sequences
Design PCR Primers for Amplifying Group-Specific Signatures
Expand Ambiguities into All Permutations of a DNAStringSet
Calculate the Distances Between Sequences
Mutual Information for Protein Secondary Structure Prediction
Determine the Number of Characters in Each Sequence
Assign Sequences a Taxonomic Classification
Train a Classifier for Assigning Taxonomy
Map Changes in Ancestral Character States
Mask Highly Variable Regions of An Alignment
Sequential Coordinate-wise Algorithm for the Non-negative Least Squares Problem
NonCoding Models for Common Non-Coding RNA Families
Predict RNA Secondary Structure in Dot-Bracket Notation
Predict Protein Secondary Structure as Helix, Beta-Sheet, or Coil
Read a Dendrogram from a Newick Formatted File
Obtain Specific Sequences from a Database
Add Sequences from Text File to Database
Determine the Number of Terminal Characters
Form a Set of Tiles for Each Group of Sequences.
Training Set for Classification of 16S rRNA Gene Sequences
Trims DNA Sequences to the High Quality Region Between Patterns
Free Energy of Hybridization of Probe/Target Quadruplets on Microarrays
Change in Enthalpy of Hybridization of DNA/DNA Quadruplets in Solution
Change in Enthalpy of Hybridization of RNA/RNA Quadruplets in Solution
Change in Entropy of Hybridization of DNA/DNA Quadruplets in Solution
Change in Entropy of Hybridization of RNA/RNA Quadruplets in Solution