class HTS::Bcf::Header

• HTS::Bcf::Header
• Reference
• Object

Defined in:

Constant Summary

BCF_TYPE_MAP = {:int => "Integer", :integer => "Integer", :int32 => "Integer", :float => "Float", :real => "Float", :string => "String", :str => "String", :character => "Character", :char => "Character", :flag => "Flag"}

Constructors

• .new(hts_file : Pointer(HTS::LibHTS::HtsFile))
• .new(bcf_hdr : Pointer(HTS::LibHTS::BcfHdrT))

  for clone

• .new

Instance Method Summary

• #add_contig(id : String, length : Int | Nil = nil, **attributes)
• #add_filter(id : String, description : String, **attributes)
• #add_format(id : String, *, number, type, description : String, **attributes)
• #add_info(id : String, *, number, type, description : String, **attributes)
• #add_meta(key : String, value : String | Nil = nil, **attributes)
• #add_sample(sample, sync : Bool = true)
• #append(line)
• #clone
• #delete(bcf_hl_type, key = nil)
• #edit(&)
• #finalize
• #format_type(tag : String)

  Character is reported as :string because htslib exposes both via BCF_HT_STR.

• #get_tid(name : String) : Int32
• #get_version
• #info_type(tag : String)

  Character is reported as :string because htslib exposes both via BCF_HT_STR.

• #merge(hdr)
• #name2id(name : String) : Int32
• #nsamples
• #read_bcf(fname)
• #remove_contig(id : String) : Bool
• #remove_filter(id : String) : Bool
• #remove_format(id : String) : Bool
• #remove_info(id : String) : Bool
• #samples
• #set_version(version)
• #subset(sample_names : Enumerable(String))
• #subset? : Bool
• #subset_imap_buffer : Pointer(Int32)
• #subset_sample_count : Int32
• #subset_samples : Array(String)?
• #sync
• #target_count : Int32
• #target_name(rid : Int32) : String
• #target_names : Array(String)
• #to_s(io : IO)

  Appends a short String representation of this object which includes its class name and its object address.

• #to_unsafe : Pointer(HTS::LibHTS::BcfHdrT)
• #update_format(id : String, *, number, type, description : String, **attributes)
• #update_info(id : String, *, number, type, description : String, **attributes)

Constructor Detail

Instance Method Detail

class Person
  def initialize(@name : String, @age : Int32)
  end
end

Person.new("John", 32).to_s # => #<Person:0x10a199f20>