title: Enhanced flowType/RchyOptimyx: a BioConductor pipeline for discovery in high-dimensional cytometry data.
abstract: We present a significantly improved version of the flowType and RchyOptimyx BioConductor-based pipeline that is both 14 times faster and can accommodate multiple levels of biomarker expression for up to 96 markers. With these improvements, the pipeline is positioned to be an integral part of data analysis for high-throughput experiments on high-dimensional single-cell assay platforms, including flow cytometry, mass cytometry and single-cell RT-qPCR.
authors.affiliation: Terry Fox Laboratory, British Columbia Cancer Agency, Vancouver, BC V5Z 1L3, Canada, Bioinformatics Graduate Program, University of British Columbia, Vancouver, BC V6T 1Z3, Canada, Max-Planck-Institut fur Informatik, Saarland University, 66123, Saarbrucken, Germany, Departments of Computer Science and Departments of Medical Genetics, University of British Columbia, Vancouver, BC V6T 1Z3, Canada.
authors.forename: Kieran
authors.initials: K
authors.lastname: O'Neill
authors.forename: Adrin
authors.initials: A
authors.lastname: Jalali
authors.forename: Nima
authors.initials: N
authors.lastname: Aghaeepour
authors.forename: Holger
authors.initials: H
authors.lastname: Hoos
authors.forename: Ryan R
authors.initials: RR
authors.lastname: Brinkman
mesh_terms: D015703:Antigens, CD / Q000032:analysis; D015415:Biomarkers / Q000032:analysis; D005434:Flow Cytometry / Q000379:methods*; D012984:Software
chemical_list: D015703:Antigens, CD; D015415:Biomarkers