seqtool - Open Sequence Tool window to interactively explore biological sequences

Syntax

Arguments

Seq

Amino acid or nucleotide sequence specified by any of the following: String of single-letter codes Row vector of integers MATLAB structure containing a Sequence field that contains an amino acid or nucleotide sequence, such as returned by fastaread, fastqread, getgenpept, genpeptread, getpdb, pdbread, emblread, getembl, genbankread, or getgenbank String specifying a file name with an extension of .gbk, .gpt, .fasta, .fa, or .ebi.

AlphabetValue

String specifying an alphabet for the sequence, Seq. Default is 'AA', except when all of the symbols in the sequence are A, C, G, T, or -, then default is 'NT'.

Description

seqtool opens the Sequence Tool window. For examples of using this window, see Importing, Viewing, and Exploring a Nucleotide Sequence Using a Graphical Interface.

seqtool(Seq) opens the Sequence Tool window and loads Seq, a sequence, into the window.

seqtool('close') closes the Sequence Tool window.

seqtool(Seq, 'Alphabet', AlphabetValue) specifies an alphabet for the sequence, Seq. Default is 'AA', except when all of the symbols in the sequence are A, C, G, T, and -, then AlphabetValue defaults to 'NT'. Use 'AA' when you want to force an amino acid sequence alphabet.

Examples

1. Retrieve a sequence from the GenBank database.

   S = getgenbank('M10051');

2. Load the sequence into the Sequence Tool window.

   seqtool(S)

   

3. Close the window.

   seqtool('close')

See Also

aa2nt | aacount | aminolookup | basecount | baselookup | dimercount | emblread | fastaread | fastawrite | genbankread | geneticcode | genpeptread | getembl | getgenbank | getgenpept | nt2aa | proteinplot | seqcomplement | seqdisp | seqrcomplement | seqreverse | seqshoworfs | seqshowwords | seqwordcount

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