Class: HTS::Bam::Pileup::PileupRecord

Inherits:
Object
  • Object
show all
Defined in:
lib/hts/bam/pileup.rb

Overview

A wrapper of one bam_pileup1_t entry

Defined Under Namespace

Classes: ReadView

Instance Method Summary collapse

Constructor Details

#initialize(entry, header) ⇒ PileupRecord

Returns a new instance of PileupRecord.



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# File 'lib/hts/bam/pileup.rb', line 18

def initialize(entry, header)
  @entry  = entry
  @header = header
end

Instance Method Details

#del? ⇒ Boolean

Returns:

  • (Boolean) 


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# File 'lib/hts/bam/pileup.rb', line 49

def del?
  @entry[:is_del] == 1
end

#head? ⇒ Boolean

Returns:

  • (Boolean) 


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# File 'lib/hts/bam/pileup.rb', line 53

def head?
  @entry[:is_head] == 1
end

#indel ⇒ Object 



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# File 'lib/hts/bam/pileup.rb', line 45

def indel
  @entry[:indel]
end

#query_position ⇒ Object 



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# File 'lib/hts/bam/pileup.rb', line 41

def query_position
  @entry[:qpos]
end

#record ⇒ Object

Lightweight read-only view over the underlying bam1_t without taking ownership.



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# File 'lib/hts/bam/pileup.rb', line 24

def record
  @record_view ||= ReadView.new(@entry[:b])
end

#refskip? ⇒ Boolean

Returns:

  • (Boolean) 


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# File 'lib/hts/bam/pileup.rb', line 61

def refskip?
  @entry[:is_refskip] == 1
end

#tail? ⇒ Boolean

Returns:

  • (Boolean) 


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# File 'lib/hts/bam/pileup.rb', line 57

def tail?
  @entry[:is_tail] == 1
end