Utility classes for reading/writing tab separated tabular data. More...

Classes
class	CDefaultTableBase
	Base class for tab-separated file i/o. More...

class	CDefaultTableReader
	Implements reading of TSV files. More...

class	CDefaultTableWriter
	Implements writing of TSV files. More...

class	CVcfTableReader
	Implements reading of VCF files. More...

class	CVcfTableWriter
	Implements writing of VCF files. More...

Variables
int	VCF_CHROM_INDX = 0

int	VCF_POS_INDX = 1

int	VCF_ID_INDX = 2

int	VCF_REF_INDX = 3

int	VCF_ALT_INDX = 4

int	VCF_QUAL_INDX = 5

int	VCF_FILTER_INDX = 6

int	VCF_INFO_INDX = 7

int	VCF_FORMAT_INDX = 8

int	VCF_FIRST_SAMPLE_INDX = 9

Detailed Description

Utility classes for reading/writing tab separated tabular data.

Internally, we handle all tabular data as tab-separated text files. This module provides convenience access to reading and writing these files, using the csv Python module.

Authors: Chris X. Weichenberger; Eva Koenig

Date: 2012-02-22

Copyright: See LICENSE file.

Variable Documentation

◆ VCF_ALT_INDX

int cls.DefaultTable.VCF_ALT_INDX = 4

◆ VCF_CHROM_INDX

int cls.DefaultTable.VCF_CHROM_INDX = 0

◆ VCF_FILTER_INDX

int cls.DefaultTable.VCF_FILTER_INDX = 6

◆ VCF_FIRST_SAMPLE_INDX

int cls.DefaultTable.VCF_FIRST_SAMPLE_INDX = 9

◆ VCF_FORMAT_INDX

int cls.DefaultTable.VCF_FORMAT_INDX = 8

◆ VCF_ID_INDX

int cls.DefaultTable.VCF_ID_INDX = 2

◆ VCF_INFO_INDX

int cls.DefaultTable.VCF_INFO_INDX = 7

◆ VCF_POS_INDX

int cls.DefaultTable.VCF_POS_INDX = 1

◆ VCF_QUAL_INDX

int cls.DefaultTable.VCF_QUAL_INDX = 5

◆ VCF_REF_INDX

int cls.DefaultTable.VCF_REF_INDX = 3

Classes

Variables