Documentation

StrandQ

StrandQ[str]⟹isValid

returns True if str is a properly formated strand (each sequence is a properly formated seqeunce of the given polymer type).

StrandQ[str,polymer]⟹isValid

returns True of str is a properly formatted strand consisting of polymer motifs.

Details

Listable over strand and polymer type.
Use Exclude option to allow other polymer types, such as Modifications, in the strand.

Input

Output

General Options

Examples

Basic Examples (2)

The function tests to see if a Strand is composed of valid sequences:

But if any sequences are invalid, StrandQ will return false:

Additional Examples (1)

Works with degeneracy:

Options (10)

CanonicalPairing (1)

If CanonicalPairing is set to False, canonical pairing is allowed in the sequences:

CheckMotifs (2)

If the CheckMotifs option is active, StrandQ will check to see that the sequences specified by matching motifs appropriately match:

If any sequences do not match, but should according to the motif, StrandQ returns False:

Degeneracy (2)

The Degeneracy option will allow for degenerate Monomers within the motifs:

If Degeneracy is set to False, degeneracy is not permitted in the sequences:

Exclude (3)

The Exclude option can be used to specify which polymer types are ignored in the polymer type check:

Multiple polymer types can be included in the exclusion:

Will exclude modifications by default:

Polymer (2)

The polymer option can be used to specify which polymer type the sequences can belong to:

If any of the sequences in the Strand don't match the allowed polymer types, it will return false:

Attributes (1)

Listable (1)

The function is listable:

Possible Issues (1)

Non-Pairing polymers (such as peptides), are considered to be their own reverse complement: