Save Genotypic (Marker and Map) Data

Select menu: Stats | QTLs (Linkage/Association) | Data Import/Export | Save Genotypic (Marker and Map) data

Use this to export marker scores and associated map data to Flapjack file format. When data are exported in this format they can be imported into both Genstat and Flapjack.

From the menu select
Stats | QTLs (Linkage/Association) | Data Import/Export | Save Genotypic (Marker and Map) data.
Fill in the fields as required then click Save.

Genotype filename

This specifies the name for the genotype data file. This file will store the information for the genotype scores for each marker. You can browse for a filename by clicking on the button.

Map filename

This file will store the map positions and linkage group information for all loci. You can browse for a filename by clicking on the button.

Type of population

Specifies the population type for export. Select a population as follows:

F2 for an F2 population
BC1 for a backcross population
DH for a double-haploid population
RILn for a population of recombinant inbred lines
CP for outcross populations
AMP for an association mapping population.

When a population is selected the relevant fields will be enabled on the dialog.

Genotypic data

Specifies the data structure names that are to be exported.

Marker genotypes	Pointer	A pointer containing a set of factors (one for each marker) where each factor has the same labels representing the genotype scores and the labels are all in the same order.
Marker names	Text	A text containing the marker names.
Linkage groups	Factor	A factor identifying the linkage group for each marker.
Positions within linkage groups	Variate	A variate containing the positions within the linkage groups for each marker.
Genotype labels	Text	A text containing id labels for genotypes. These can be used to ensure the genotypes for the phenotypic data matches the map data.
Parental information	Pointer	A pointer to a set of texts (one for each parent) containing the parent information.
Parent labels	Text	A text containing id labels for the parental information.

Options

Provides additional options for exporting the data.

Separator between marker genotypes	Specifies the character that is used to separate the marker genotypes within a Flapjack text genotype file. You can choose either Tab, Spaces or supply another character in the space provided.
Separator between alleles	Provides a space to specify a character to use to separate the alleles in the Flapjack text genotype # file. If no separator has been used then leave this field empty.
Missing data string	Specifies the character to represent missing data in a Flapjack text genotype file.

Action Icons

	Clear	Clear all fields and list boxes.
	Help	Open the Help topic for this dialog.