snapatac2.PyDNAMotifScanner.exist

PyDNAMotifScanner.exist(seq, pvalue=1e-05, rc=True)

Check if the motif exists in the given sequence above the specified p-value threshold.

Use this method when only a boolean motif-presence result is needed. Set rc=True to test both the sequence and its reverse complement.

Anti-Patterns

• Do NOT use this method when hit positions are required; use find for forward-strand hit positions.

type seq:

str

param seq:

DNA sequence to scan.

type seq:

str

type pvalue:

float

param pvalue:

P-value threshold for reporting motif occurrences. Default is 1e-5.

type pvalue:

float

type rc:

bool

param rc:

Whether to consider reverse complement matches. Default is True.

type rc:

bool

returns:

True if the motif exists in the sequence, False otherwise.

rtype:

bool

Examples

>>> scanner.exist("ACGTACGT", pvalue=1e-5, rc=True)