NEWS
KEGGemUP 0.99.0
- Ready for the submission to Bioconductor!
KEGGemUP 0.9.1
- Better tooltip implementation
- Highlighting of the nodes now takes care of graying out a bit more of elements that should indeed be not too much into the focus
- Added
export_kegg_graph() as a simple function to export the graphs to text files, for maximum compatibility with any framework (possibly even within Cytoscape)
- Providing an example dataset already precomputed within the package to avoid additional dependency load; as a companion to this, added detailed information on how to create this in the
inst/scripts folder
- Finalized a full version of the vignette
- Completed the configuration of the pkgdown documentation
- Exporting also the
cleanup_title_node() function to remove the title node in pathway graphs
KEGGemUP 0.9.0
- Restructuring the API to use declarative function names, that possibly better convey the piece of functionality (
create_kegg_graph() and render_kegg_graph() as the main workhorse)
- The functions to retrieve the kgml files are now a bit more verbose if needed (
retrieve_kgml() and retrieve_all_pathways())
- Subsetting and highlighting KEGG graphs is now possible with
subset_kegg_graph() and highlight_kegg_graph(), subsequently to be passed to render_kegg_graph()
- The cache & download is handled in a more homogeneous manner, with
display_cache_KEGGemUP() and reset_cache_KEGGemUP() to check and reset the info retrieved
- Mapping continuous values from different DE-results like containers is handled by
map_results_to_graph()
KEGGemUP 0.2.0
- Essential functionality implemented, from kgml files all the way down to rendering interactively
KEGGemUP 0.1.0
- Getting the package ready with the full set of original features!