Class Hierarchy

Go to the graphical class hierarchy

This inheritance list is sorted roughly, but not completely, alphabetically:

[detail level 1234]

Args	Struct to pass around command line arguments. Will either be depricated, or will be integreated into the interface.h*/
Argument	A command line argument. See the interface tutorial for a demonstration of usage
Base	A class converts human readable bases to bit flags
Base_file	A templet which stores data associated with specific locations in a genome
Data_file< Data >
Data_file< Locus >
Indexed_file< Locus >
Bcf2pro_file	Because of the god awful mess that are vcf header lines
Data_file< T >
Flat_file< T >
Indexed_file< T >
Double_indexed_file< T >
External_file< External_data >	An interface for reading and writing data specified outside of mapgd
External_file< Bed_data >
Bed_file
External_file< Plink_data >
Plink_file
External_file< Vcf_data >
Vcf_file
binomial	A class that returns the binomial coefficient or the pdf the binomial distribution. Not Log
Command	A sub-command of mapgd
Constants< R, T >
Data	A class which can be written as flat text file or into an SQL database
Double_indexed_data
Linkage	A class to store linkage information
File_index	An interface that transforms pairs of name and position keys into record numbers
Indexed_data	Data which has an absolute position
Allele	Summary statistics from the allele command
Locus
Bcf2pro	Because of the god awful mess that are vcf header lines
Pooled_data	Information genereated from pooled data
Population	Population genotypes
Key	A key is (i.e. what the user called it)
Log	A class to store a log of commands that have been run
Pedigree	Pedigree data
Phenotype	Phenotype data
Relatedness	Relatedness data
Sample_gof	The sample specific goodness of fit
Sample_name	The name of a sample (i.e. what the user called it)
State
Environment	A class for handling options and automatically formating –help, -h, -u and -v
External_data	An interface used to read/write data from outside of mapgd
Bed_data
Plink_data
Vcf_data
file_s
Flag	A class that passes command line flags. It takes no arguments and chews only a single letter.*/
Genotype
Genotype_pair
Info	Because of the god awful mess that are vcf header lines
ios
gzstreambase
igzstream
ogzstream
istream
igzstream
Tmp_buffer
lnmultinomial
models
ostream
ogzstream
Pedigree_record
Plink_record< T >
Plink_record< real_t >
quartet	A class that stores quartet information
Region
Registration	A class which registers a child of Data in Data::new_data_
small_rel
sort_second
State_stream
streambuf
gzstreambuf
Tmp_streambuf