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Luis M Rodríguez-R > Polloc-v1.5.3 > Bio::Polloc::GroupCriteria

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Module Version: 1.0503   Source   Latest Release: Polloc-1.5.3b

NAME ^

Bio::Polloc::GroupCriteria - Rules to group loci

DESCRIPTION ^

Takes loci and returns groups of loci based on certain rules. If created via .bme (.cfg) files, it is defined in the [ RuleGroup ] and [ GroupExtension ] namespaces.

AUTHOR - Luis M. Rodriguez-R ^

Email lmrodriguezr at gmail dot com

LICENSE ^

This package is licensed under the Artistic License - see LICENSE.txt

IMPLEMENTS OR EXTENDS ^

APPENDIX - Methods ^

Methods provided by the package

new

source

target

locigroup

condition

evaluate

get_loci

get_locus

extension

extend

build_bin

bin_build_groups

build_groups

genomes

INTERNAL METHODS ^

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

_detect_border_pairs

_next_group_id

_build_subseq

Arguments

All the following arguments are mandatory and must be passed in that order. The strand will be determined by the relative position of from/to:

  • The sequence (Bio::Seq object).
  • The from position (int).
  • The to position (int).
Returns

A Bio::Seq object.

Comments

This method should be located at a higher hierarchy module (Root?).

This method is static.

_search_aln_seqs

_feat_index2obj

_grouprules_cleanup

_initialize

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