eHDPrep (development version)

eHDPrep 1.4.0

• Modified the apply_quality_ctrl function to accept data even without genomics variables
• Fixed the dplyr compatibility issues in encode_ordinals and related functions

eHDPrep 1.3.4

• Fixed the cross-references issue in man/metavariable_agg.Rd and man/join_vars_to_ontol.Rd

eHDPrep 1.3.3

• Fixed typo in vignette
• Added CITATION file and added reference to citation in vignette

eHDPrep 1.3.2

General

• Added a NEWS.md file to track changes to the package.
• Added link to eHDPrep’s github repository in package documentation.
• Updated various documentation (functions and vignette).
• Now minimally requires and is compatible with dplyr 1.1.0 (#3, @DavisVaughan).

Quality Control

• completeness_heatmap() has been altered to avoid an issue of plotting over other plots. Now requires plot.new() call.

Semantic Enrichment

• Added function, metavariable_variable_descendants(), to more easily access relationships between meta-variables and their descendant variables.
• semantic_enrichment() now accepts a label attribute to label meta-variables with the parameter: label_attr.
• semantic_enrichment() now accepts an ontology as a data frame edge table, as a path to an edge table in CSV format, or as a tidygraph/igraph graph.
• Added function, edge_tbl_to_graph(), to convert edge tables, as data frames, to tidygraph graphs.
• Added data, example_edge_table, to demonstrate edge_tbl_to_graph().
• example_ontology is now generated from example_edge_table.
• metavariable_info() now can exclude meta-variables with an information content less than a threshold from output with the IC_threshold parameter. This will exclude non-specific meta-variables from consideration when output is passed to metavariable_agg() (e.g. ontology’s root node).