Man pages for DrugComb/TidyComb
Preparing drug combination data for DrugComb

CalculateMatChain all calculation about one dose-response matrix
CalculateSensCalculate relative inhibition (RI) for dose-response curve
CalculateTemplateCalculate Drug Combination data in template format
CellVersionCheck Cellosaurus XML file version.
CheckCellCheck whether input cell lines are archived in DrugComb
CheckDiseaseCheck whether input diseases are archived in DrugComb
CheckDrugCheck whether input drugs are archived in DrugComb
CheckTemplateCheck the input template
CheckTissueCheck whether input tissues are archived in DrugComb
ChemblVersionCheck version of ChEMBL database
drugcombIdentifiers in DrugComb
GenerateCellGenerate "cell_line" and "cell_id" tables
GetAccessionExtract the Cellosaurus accession ID of one cell line.
GetAllSrcIdsGet all src_ids
GetCellExtract the nodes containing information of inputted cell...
GetCellInfoExtract cell line information
GetCellNameExtract primary name and synonyms of one cell line.
GetChemblGet information from ChEMBL
GetChemblPhaseGet max clinical trial phase from ChEMBL ID
GetCidMatch CID according to other identifiers
GetDiseaseExtract the disease information of one cell line.
GetIdsGet other identifiers from InChIKey
GetPubchemProGet properties of drugs
GetPubmedGet publication information from Pubmed
GetPubNamesGet drug synonyms from PubChem
GetPubPhaseGet max clinical trial phase from Pubchem
GetPubSynonymFromNameGet drug synonyms from PubChem by Drug names
GetTissueExtract the source tissue of one cell line.
ImputeIC50Impute missing value at IC50 concentration of drug
MatchCellAccMatch cell line name with cellosaurus accession
own_logCSS facilitate function - log calculation (nature based) LL.4...
own_log2CSS facilitate function - log (nature based) calculation L.4...
ParCalculateTemplateParallel Calculate Drug Combination data in template format
ParseCellParse the Cellosaurus XML file
PredictResponsePredict response value at certain drug dose
RIConfidenceIntervalCalculate Confidence Interval of RI
scoreCurveCSS facilitate function - scoreCurve for curves fitted by...
scoreCurve.L4CSS facilitate function - scoreCurve for curves fitted by L.4
smoothingSmoothing the dose response or synergy score surface
TidyCombTidyComb: Preparing drug combination data for DrugComb
UpdateCellUpdate local Cellosaurus XML file
UpdateCidGet "Preferred Compound" of "Non-live" compounds in PubChem
DrugComb/TidyComb documentation built on June 22, 2022, 2:49 a.m.