Assignment of Haplotypes Based on SNP Dosages in Diploids and
Polyploids
Infer the genetic composition of individuals
in terms of haplotype dosages for a haploblock, based
on bi-allelic marker dosages,
for any ploidy level.

Infer the genetic composition of individuals
in terms of haplotype dosages for a haploblock, based
on bi-allelic marker dosages, for any ploidy level.
Reference: Voorrips and Tumino: PolyHaplotyper: haplotyping in polyploids based on bi-allelic marker dosage data.
Submitted to BMC Bioinformatics (2021).

Paternity Exclusion in Autopolyploid Species
Functions to perform paternity exclusion via allele
matching, in autopolyploid species having ploidy 4, 6, or 8. The
marker data data used can be genotypic (copy numbers known) or
'phenotypic' (copy numbers not known).

Functions to perform paternity exclusion via allele
matching, in autopolyploid species having ploidy 4, 6, or 8. The
marker data used can be genotype data (copy numbers known) or
'allelic phenotype data' (copy numbers not known).

Paternity exclusion in autopolyploid species

This algorithm can classify the trends as linear, quadratic, cubic, concealed or no-trend. The "concealed trend" are those trends that possess quadratic or cubic forms, but the net change between the start and end of the period hasn't been significant. While, the "no-trend" category includes simple linear trends that are below the significant slope coefficient.

This algorithm classifies the trends into linear, quadratic, cubic, concealed and no-trend types. The "concealed trends" are those trends that possess quadratic or cubic forms, but the net change from the start of the time period to the end of the time period hasn't been significant. The "no-trend" category includes simple linear trends with statistically in-significant slope coefficient.

Tools for creating, viewing, and assessing qualitative
palettes with many (20-30 or more) colors.
colorspace, rgl, methods, graphics, grDevices, stats, utils

colorspace, scatterplot3d, methods, graphics, grDevices,
stats, utils