NEWS.md

In egeulgen/pathfindR.data: Data Package for 'pathfindR'

pathfindR.data (development version)

pathfindR.data 2.1.0

Major changes

• Updated hsa KEGG pathways gene set objects kegg_genes and kegg_descriptions
• Updated mmu KEGG pathways gene set objects mmu_kegg_genes and mmu_kegg_descriptions
• Updated Reactome gene set objects reactome_genes and reactome_descriptions
• Updated BioCarta gene set objects biocarta_genes and biocarta_descriptions
• Updated GO gene set objects go_all_genes and GO_all_terms_df
• Updated the BioGRID PIN adjacency list biogrid_adj_list
• Updated the KEGG adjacency list kegg_adj_list
• Updated the STRING adjacency lists mmu_string_adj_list and string_adj_list
• Updated the example data: example_custom_genesets_result, example_pathfindR_output, example_pathfindR_output_clustered, example_comparison_output and example_mmu_output
• Updated the example_active_snws data
• updated the manifest data frame pathfindR.data_updates

pathfindR.data 2.0.0

Major changes

• Renamed example input/output data for better organization and easier access

pathfindR.data 1.1.3

Major changes

• Updated (hsa) KEGG pathways gene set objects kegg_genes and kegg_descriptions
• Updated mmu KEGG pathways gene set objects mmu_kegg_genes and mmu_kegg_descriptions
• Updated Reactome gene set objects reactome_genes and reactome_descriptions
• Updated BioCarta gene set objects biocarta_genes and biocarta_descriptions
• Updated GO gene set objects go_all_genes and GO_all_terms_df
• Updated the BioGRID PIN adjacency list biogrid_adj_list
• Updated the KEGG adjacency list kegg_adj_list
• Updated the IntAct PIN adjacency list intact_adj_list
• Updated the example data: RA_output, RA_clustered, RA_comparison_output and myeloma_output

pathfindR.data 1.1.2

Major changes

• Updated (hsa) KEGG pathways gene set objects kegg_genes and kegg_descriptions
• Updated mmu KEGG pathways gene set objects mmu_kegg_genes and mmu_kegg_descriptions
• Updated Reactome gene set objects reactome_genes and reactome_descriptions
• Updated BioCarta gene set objects biocarta_genes and biocarta_descriptions
• Updated GO gene set objects go_all_genes and GO_all_terms_df
• Updated example data RA_output, RA_clustered, RA_comparison_output and myeloma_output
• Updated the BioGRID PIN adjacency list biogrid_adj_list
• Updated the STRING PIN adjacency list string_adj_list
• Updated the mmu STRING PIN adjacency list mmu_string_adj_list
• Updated the GeneMania PIN adjacency list genemania_adj_list
• Updated the KEGG adjacency list kegg_adj_list
• Updated the IntAct PIN adjacency list intact_adj_list
• Updated example custom enrichment results data frame custom_results

Minor changes and bug fixes

• Updated kegg_genes and kegg_descriptions so that there are no duplicated term descriptions
• Updated mmu_kegg_genes and mmu_kegg_descriptions so that there are no duplicated term descriptions

pathfindR.data 1.1.1

Major changes

• Added the data frame of data pathfindR.data_updates, containing all the data for pathfindR along with descriptions and last update dates
• Updated example data RA_output, RA_clustered, RA_comparison_output and myeloma_output after addition of the 'support' column

Minor changes and bug fixes

• Updated BioGRID PIN so that it does not contain self-interactions

pathfindR.data 1.1.0

Major changes

• Updated (hsa) KEGG pathways gene set objects kegg_genes and kegg_descriptions
• Updated mmu KEGG pathways gene set objects mmu_kegg_genes and mmu_kegg_descriptions
• Updated Reactome gene set objects reactome_genes and reactome_descriptions
• Updated BioCarta gene set objects biocarta_genes and biocarta_descriptions
• Updated GO gene set objects go_all_genes and GO_all_terms_df
• Updated Human Cell Markers gene set objects cell_markers_gsets and cell_markers_descriptions
• Updated the BioGRID PIN adjacency list biogrid_adj_list
• Updated the IntAct PIN adjacency list intact_adj_list
• Updated the KEGG adjacency list kegg_adj_list
• Updated example data RA_output, RA_clustered, RA_comparison_output and myeloma_output

pathfindR.data 1.0.0

Major changes

• Moved all data and related documentation from the main package pathfindR to this package

egeulgen/pathfindR.data documentation built on May 3, 2024, 8:42 a.m.