Protein and Amino Acid Sequence Analysis
Calculate and interactively explore amino acid sequence statistics;
calculate sequence properties; find cleavage enzymes
Apps
Sequence Viewer | Visualize and interactively explore biological sequences |
Functions
aacount | Count amino acids in sequence |
codonbias | Calculate codon frequency for each amino acid coded for in nucleotide sequence |
codoncount | Count codons in nucleotide sequence |
nmercount | Count n-mers in nucleotide or amino acid sequence |
seqwordcount | Count number of occurrences of word in sequence |
aa2nt | Convert amino acid sequence to nucleotide sequence |
nt2aa | Convert nucleotide sequence to amino acid sequence |
aa2int | Convert amino acid sequence from letter to integer representation |
int2aa | Convert amino acid sequence from integer to letter representation |
revgeneticcode | Return reverse mapping (amino acid to nucleotide codon) for genetic code |
aminolookup | Find amino acid codes, integers, abbreviations, names, and codons |
geneticcode | Return nucleotide codon to amino acid mapping for genetic code |
atomiccomp | Calculate atomic composition of protein |
isoelectric | Estimate isoelectric point for amino acid sequence |
isotopicdist | Calculate high-resolution isotope mass distribution and density function |
molweight | Calculate molecular weight of amino acid sequence |
seqviewer | Visualize and interactively explore biological sequences |
seqdisp | Format long sequence output for easy viewing |
seqshoworfs | Display open reading frames in sequence |
proteinplot | Open Protein Plot window to investigate properties of amino acid sequence |
proteinpropplot | Plot properties of amino acid sequence |
ramachandran | Draw Ramachandran plot for Protein Data Bank (PDB) data |
seqconsensus | Calculate consensus sequence |
seqdotplot | Create dot plot of two sequences |
seqlogo | Display sequence logo for nucleotide or amino acid sequences |
seqprofile | Calculate sequence profile from set of multiply aligned sequences |
seqinsertgaps | Insert gaps into nucleotide or amino acid sequence |
cleave | Cleave amino acid sequence with enzyme |
cleavelookup | Find cleavage rule for enzyme or compound |
seq2regexp | Convert sequence with ambiguous characters to regular expression |
featureparse | Parse features from GenBank, GenPept, or EMBL data |
randseq | Generate random sequence from finite alphabet |
seqmatch | Find matches for every character vector in library |
Topics
- Explore a Protein Sequence Using the Sequence Viewer App
Use the Biological Sequence Viewer to investigate protein sequences.
- Compare Sequences Using Sequence Alignment Algorithms
Determining the similarity between two sequences is a common task in computational biology.
- Protein Property Analysis
You can use a collection of protein analysis methods to extract information from your data.
- Sequence Utilities and Statistics
You can manipulate and analyze your sequences to gain a deeper understanding of the physical, chemical, and biological characteristics of your data.