theplu::yat::omic Namespace Reference

Classes and functions related to genomics and proteomics. More...

Classes
class	Codon
struct	AminoAcidEqual
	Functor comparing id two Codons translate to the same amino acid. More...
class	DNA
class	GenomicPosition
Functions
unsigned short	chr2int (const std::string &str)
	transform a string to unsigned short chromosome number

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Detailed Description

Classes and functions related to genomics and proteomics.

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Function Documentation

unsigned short theplu::yat::omic::chr2int

(

const std::string &

str

)

transform a string to unsigned short chromosome number

If str starts with 'chr' that prefix is stripped away before translating the string to chromosome number. Function translates "X" to 23, "Y" to 24, and "M" or "MT" to 25. For other inputs utility::convert is used to transform the input to an unsigned short.

Returns:

chromosome number

Since:

New in yat 0.7