Leveraging National Germplasm Collections to Determine Significantly Associated Categorical Traits in Crops: Upland and Pima Cotton as a Case Study
Daniel Restrepo-Montoya1, Amanda M Hulse-Kemp1,2*, Jodi A Scheffler3, Candace H Haigler1, Lori L Hinze5, Janna Love5, Richard G Percy5(retired), Don C Jones6, and James Frelichowski5*
*Corresponding authors - Accepted on 21 March 2022 - Front. Plant Sci. doi: 10.3389/fpls.2022.837038
- Department of Crop and Soil Sciences, North Carolina State University, Raleigh, NC USA
- Genomics and Bioinformatics Research Unit, USDA-ARS, Raleigh, NC USA
- Crop Genetics Research Unit, USDA-ARS, Stoneville, MS USA
- Department of Plant and Microbial Biology, North Carolina State University, Raleigh, NC USA
- Crop Germplasm Research Unit, USDA-ARS, College Station, TX USA
- Cotton Incorporated, Raleigh, NC USA
Bivariate associations and mosaic plots, article version
Detailed Bivariate associations and mosaic plots, additional coloring for deciphering between 0.01 level and 0.05 FDR adjusted significance levels
These plots have been modified to allow coloring to decipher between FDR adjusted p-values <0.05 for detailed analysis. The p-value color fill scale (top right corner) is broken into 3 ranges allowing for identification of the FDR p-vaules of the associations for reporting values: 1) below 0.03 - red, 2) between 0.03 and 0.05 - orange, and 3) above 0.05 to 1 - blue. Red rectangle ranges are further clarified by color of the circle in the boxes to indicate below 0.01 with dark gray; between 0.01 - 0.03 are light gray. All other color boxes have light gray circles as they are above 0.01 by default. Specific p-values can be found in each mosaic plot when expanded in the detailed plot title.Extra scripts for clustering and multivariate analysis
Extra plot of MCA - Cloud of individuals in high resolution
Counter Map
