NAME

Bio::Polloc::Rule::crispr - A rule of type CRISPR

DESCRIPTION

Runs CRISPRFinder v3 to search CRISPRs

AUTHOR - Luis M. Rodriguez-R

Email lmrodriguezr at gmail dot com

APPENDIX

Methods provided by the package

new

• Generic initialization method.

execute

• Runs CRISPRfinder and parses the output.

• Arguments

  -seq Bio::Seq or Bio::SeqIO obj

  The sequence(s).

• Returns

  An array reference populated with Bio::Polloc::Locus::crispr objects

stringify_value

• Stringifies the requested value

value

Arguments

Value (str or hashref or arrayref). The supported keys are:

-ignoreprobable

Should I ignore the ProbableCrispr results?

Returns

Value (hashref or undef).

INTERNAL METHODS

Methods intended to be used only within the scope of Bio::Polloc::*

_parameters

_executable

Attempts to find the CRISPRfinder script.

_qualify_value

Implements the _qualify_value() from the Bio::Polloc::RuleI interface

Return

Value (ref-to-hash or undef)

_initialize