LICENSE
Copyright [1999-2015] Wellcome Trust Sanger Institute and the EMBL-European Bioinformatics Institute Copyright [2016-2024] EMBL-European Bioinformatics Institute
Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at
http://www.apache.org/licenses/LICENSE-2.0
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NAME
Bio::EnsEMBL::Mapper::IndelCoordinate
SYNOPSIS
DESCRIPTION
Representation of a indel in a sequence; returned from Mapper.pm when the target region is in a deletion.
METHODS
new
Arg [1] : Bio::EnsEMBL::Mapper::Gap $gap
Arg [2] : Bio::EnsEMBL::Mapper::Coordinate $coordinate
Example : $indelCoord = Bio::EnsEMBL::Mapper::IndelCoordinate($gap, $coordinate);
Description: Creates a new IndelCoordinate object.
Returntype : Bio::EnsEMBL::Mapper::IndelCoordinate
Exceptions : none
Caller : Bio::EnsEMBL::Mapper
gap_start
Arg[1] : (optional) int $gap_start
Example : $gap_start = $ic->gap_start()
Description : Getter/Setter for the start of the Gap region
ReturnType : int
Exceptions : none
Caller : general
gap_end
Arg[1] : (optional) int $gap_end
Example : $gap_end = $ic->gap_end()
Description : Getter/Setter for the end of the Gap region
ReturnType : int
Exceptions : none
Caller : general
gap_length
Args : None
Example : $gap_length = $ic->gap_length()
Description : Getter for the length of the Gap region
ReturnType : int
Exceptions : none
Caller : general