Cogenfito

COmposite GENotype FInder TOol: Cogenfito

COGENFITO facilitates several querying and browsing applications to leverage genotype data sets and publically available lines with immortalized genotypes:

Select lines with specific composite genotypes for breeding programs aimed at QTL finemapping and characterization of effects.

Browse and/or download genotypic information from isoline populations to assess levels of recombination, missing data, and segregation distortion across genomic regions or genomewide.

Identify lines with recombination breakpoints, and the map interval that localizes the recombination event.

Visualize the recombination breakpoints that support the genetic order of markers relative to their order in the physical map.

Compare map resolution, missing data levels, and marker placement between different genetic maps.

Upload your own trait data for isoline populations and view them as a heat-map in tandem with genotypic data.

Select a Genetic Map: See a list of markers for this map See a list of lines comprising this map	Upload numerical trait data for this isoline population
Locus 1: Marker: Genotype: Genotype must match at this marker cM Range:	Instructions for Trait Data Paste numerical trait values in the textarea from an excel spreadsheet with one trait per column. The first row of each column should be designated for the trait name. Up to four traits can be uploaded at once. There should be a value for each individual in the population you selected. Missing data is represented by a "-". Paste in this example with four traits for the currently selected genetic mapping population to see how COGENFITO processes the data.		Paste trait data over this text

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