Enhanced flowType/RchyOptimyx: a Bioconductor pipeline for discovery in high-dimensional cytometry data | Zendy

Kieran O’Neill | Zendy; Adrin Jalali | Zendy; Nima Aghaeepour | Zendy; Holger H. Hoos | Zendy; Ryan R. Brinkman | Zendy

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Enhanced flowType/RchyOptimyx: a Bioconductor pipeline for discovery in high-dimensional cytometry data

Author(s) -

Kieran O’Neill,

Adrin Jalali,

Nima Aghaeepour,

Holger H. Hoos,

Ryan R. Brinkman

Publication year - 2014

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btt770

Subject(s) - bioconductor , pipeline (software) , flow cytometry , mass cytometry , computer science , throughput , cytometry , software , license , computational biology , data mining , biology , microbiology and biotechnology , operating system , gene , biochemistry , wireless , phenotype

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.

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