Changes in version 2.99.19 - NicheNet pipeline works - Fixed an error which resulted value 1 in the n_references columns even for records without references Changes in version 2.99.17 - Improved quality filtering of intercell networks Changes in version 2.99.16 - Improved API for translate_ids - Quality filtering of intercell networks Changes in version 2.99.13 - Functions to access KEGG Pathways - More robust access to UniProt (in case of network failures) Changes in version 2.99.11 - Improved downloader backends Changes in version 2.99.8 - OBO parser - Gene Ontology access, functions to work with ontology trees - Database manager Changes in version 2.99.7 - New interactions query parameter: loops - Fixed many caching bugs Changes in version 2.99.6 - All downloaders attempt 3 times - New resources: Human Phenotype Ontology and Gene Ontology annotations Changes in version 2.99.0 (2021-03-08) - Many new resources besides OmniPath: BioPlex, ConsensusPathDB, EVEX, Guide to Pharmacology (IUPHAR/BPS), Harmonizome, HTRIdb, InWeb InBioMap, Pathway Commons, Ramilowski et al. 2015, RegNetwork, ReMap, TF census, TRRUST and Vinayagam et al. 2011 - Methods for converting network elements to Bio Model Analyzer (BMA) motifs - NicheNet workflow - Some igraph related methods: finding all paths up to certain length; extracting the giant component of a graph - Caching - Logging - Configuration handling Changes in version 1.99.0 (2020-10-03) - New tests - Many little bugfixes - Updated package metadata - Preparation for Bioconductor 3.12 Changes in version 1.3.4 (2020-08-04) - License and password handling - Can be directed to different server by options Changes in version 1.3.1 (2020-06-05) - Addition of the package website. - Modification of the pdf vignette for an html one. - Major refactoring of functions. - Addition of the intercellular network function. - Modification for the intercellular categories. Changes in version 1.1.4 (2020-03-28) - Refactored the import_annotations method Changes in version 0.99.12 (2019-10-10) - Modification in the separation between genes within a complex (from dash to underscore) Changes in version 0.99.0 (2019-10-10) - Submitted to Bioconductor