Add trimming functionality and update related documentation#144
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Add trimming functionality and update related documentation#144smasongarrison wants to merge 15 commits intomainfrom
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This pull request adds new functionality for identifying and removing leaf nodes from pedigree datasets, making it easier to clean and simplify pedigree structures. The main changes introduce two new functions—
findLeavesandtrimPedigree—along with their documentation and export statements. These functions help users iteratively prune pedigree data by removing individuals who do not affect the overall connectivity of the pedigree, with flexible options for customization.New pedigree pruning functionality:
findLeavesfunction, which identifies structural leaf nodes in a pedigree (terminal nodes and founder singletons), with options to protect individuals based on phenotype data and to control verbosity. (R/trimPedigree.R,NAMESPACE,man/findLeaves.Rd) [1] [2] [3]trimPedigreefunction, which iteratively removes leaf nodes from a pedigree until no more can be removed or a stopping condition is met. It supports user-specified removals, minimum size constraints, phenotype-based protection, and updates parent references after removal. (R/trimPedigree.R,NAMESPACE,man/trimPedigree.Rd) [1] [2] [3]Documentation and exports:
findLeavesandtrimPedigreein theNAMESPACEfile so they are available for users. [1] [2]findLeavesandtrimPedigree, including usage examples and detailed parameter explanations. (man/findLeaves.Rd,man/trimPedigree.Rd) [1] [2]