flowdex: Extract Fluorescence Distribution Data from FCS Files and...

In bpollner/flowdex: Extract Fluorescence Distribution Data from FCS Files and Recalculate to Events per Volume

Extract Fluorescence Distribution Data from FCS Files and Recalculate to Events per Volume

Description

Extract fluorescence distribution data from any bivariate distribution within a previously defined flow cytometry gating set and recalculate the fluorescence distribution data to events per volume. To (meaningfully) use flowdex, the FCM files have to contain volumetric measurement data denoting the acquired sample volume.

Details

When calling flowdexit, the gating set "gs" is assigned to the parent envelope.

Important

In order to be able to correctly re-calculate raw events to events per volume unit, it is paramount to obtain the correct volume factor from the manual of the FCM-machine / the volumetric measurement module. Please see the section 'Calculating Events per Volume Unit' at flowdexit for further details.

CAVE

Some functions like e.g. repairVolumes, repairSID or checkRepairFcsFiles can re-write fcs files to disc, thereby overwriting original fcs files. It is therefore recommended to work on a copy of the original fcs files.

Maintainer

Bernhard Pollner <[e-mail]>

Links

Please see https://bpollner.github.io/flowdex/ for practical examples and a small tutorial; bug reports can be made at https://github.com/bpollner/flowdex/issues.

Important functions

flowdexit

Acknowledgements

This work was made possible by support from IPF Austria - Georg Huber.
Flow cytometry data were acquired at the Institute for Hygiene and Medical Microbiology, Medical University of Innsbruck, Austria.

Author(s)

Bernhard Pollner

bpollner/flowdex documentation built on March 31, 2022, 3:21 a.m.