Man pages for tidymass/massdatabase
Play with databases about mass spectrometry

convert2metidConvert data (list, from read_msp_data function) to metID...
convert_bigg_universal2metidConvert BIGG universal metabolites (data.frame, from...
convert_chebi2metidConvert BIGG universal metabolites (data.frame, from...
convert_foodb2metidConvert FOODB compound data (list, from...
convert_gnps2metidConvert GNPS data (list) to metID format database
convert_hmdb2metidConvert HMDB data (MS1 or MS2) to metID format database
convert_kegg2metidConvert KEGG compound/drug data (data.frame, from...
convert_kegg2metpathConvert KEGG pathway data (list, from read_kegg_pathway...
convert_lipidbank2metidConvert lipid bank data (data.frame) to metID format database
convert_lipidmaps2metidConvert LIPIDMAPS compound data (list, from...
convert_massbank2metidConvert MassBank data (list) to metID format database
convert_massbank2metid_nistConvert MassBank data (list, from NIST) to metID format...
convert_massbank2metid_rikenConvert MassBank data (list, from RIKEN) to metID format...
convert_mona2metidConvert MoNA data (list) to metID format database
convert_nist2metidConvert GNPS data (list) to metID format database
convert_smpdb2metpathConvert smpdb pathway data (list, from read_smpdb_pathway...
convert_species2sourceConvert species to source
download_bigg_modelDownload BIGG model data
download_bigg_universal_metaboliteDownload BIGG universal metabolites
download_chebi_compoundDownload the CHEBI compound database
download_foodb_compoundDownload FOODB compound data
download_gnps_spectral_libraryDownload GNPS MS2 database (msp)
download_kegg_compoundDownload KEGG compound data
download_kegg_drugDownload KEGG drug data
download_kegg_pathwayDownload KEGG pathway data
download_kegg_rclassDownload KEGG reaction class database
download_kegg_reactionDownload KEGG reaction database
download_lipidbank_lipid_classDownload lIPIDBANK database
download_lipidmaps_lipidDownload LIPIDMAPS data
download_massbank_compoundDownload the MassBank compound database
download_pubchem_compoundRequest the information of one compound from PubChem
download_smpdb_pathwayDownload SMPDB pathway data
get_words_similarityGet the similarity between two words
massdatabase_logoShow the base information of massdatabase pacakge
massdatabase_packagesList all packages in the massdatabase
match_tablematch_table
parse_pubchem_compoundParse the json or xml compound data from PubChem
parse_reactome_reactionParse the sbml reaction data from Reactome
read_bigg_modelRead the BIGG model from download_bigg_model function
read_bigg_universal_metaboliteRead the BIGG universal metabolite database from...
read_chebi_compoundRead the CHEBI compound database from download_chebi_compound...
read_foodb_compoundRead the FOODB compound database from download_foodb_compound...
read_gpmlRead GPML format data from wikipathway database
read_kegg_compoundRead the KEGG compound database from download_kegg_compound...
read_kegg_drugRead the KEGG drug database from download_kegg_drug function
read_kegg_pathwayRead the KEGG pathway database from download_kegg_pathway...
read_msp_dataread_msp_data
read_msp_data_gnpsread_msp_data_gnps
read_msp_data_massbankread_msp_data_massbank
read_msp_data_monaread_msp_data_mona
read_msp_data_nistread_msp_data_nist
read_sdf_data_lipidmapsRead the sdf database from download_lipidmaps_lipid function
read_smpdb_pathwayRead the SMPDB pathway database from download_smpdb_pathway...
read_xml_dataread_xml_data
read_xml_data_hmdbread_xml_data_hmdb
request_bigg_model_infoRequest BIGG model information
request_bigg_reaction_infoRequest BIGG reaction information for specific species...
request_bigg_universal_metaboliteRequest BIGG metabolite
request_bigg_universal_metabolite_infoRequest BIGG universal metabolite information
request_bigg_universal_reactionRequest BIGG reaction
request_bigg_universal_reaction_infoRequest BIGG universal reaction information
request_bigg_versionRequest BIGG version
request_chebi_compoundRequest CHEBI compound
request_foodb_compoundRequest one specific the compound information in FoodB
request_foodb_compound_infoRequest all the food information in FoodB
request_foodb_compound_info_crawlerRequest all the compound information in FooDB based on web...
request_foodb_compound_ms2Request MS2 spectra of one compound in FoodB
request_hmdb_metaboliteRequest one specific the metabolite information in HMDB
request_hmdb_reactionRequest one specific reaction information in HMDB
request_kegg_compoundRequest one specific compound information in KEGG
request_kegg_compound_infoRequest all compound information in KEGG
request_kegg_drugRequest one specific drug information in KEGG
request_kegg_drug_infoRequest all drug information in KEGG
request_kegg_pathwayRequest one specific pathway information in KEGG
request_kegg_pathway_infoRequest all pathway information in KEGG
request_kegg_rclassRequest one specific reaction class information in KEGG
request_kegg_rclass_infoRequest all reaction class information in KEGG
request_kegg_reactionRequest one specific reaction information in KEGG
request_kegg_reaction_infoRequest all reaction information in KEGG
request_lipidbank_lipid_classRequest Lipidbank database
request_lipidmaps_lipidRequest one lipid information in LIPIDMAPS
request_pubchem_compoundRequest the information of one compound from PubChem
request_reactome_reactionRequest one specific reaction information in Reactome
request_wikipedia_compoundRequest the information of one compound
request_wikipedia_scientific_classificationRequest the scientific classification of one species from...
search_hmdb_databaseSearch metabolite in HMDB
show_progressershow_progresser
smpdb_primary_pathway_idsmpdb_primary_pathway_id
tidymass/massdatabase documentation built on Sept. 10, 2023, 10:35 p.m.