Extract Flow Cytometry data from FCS files version 3+.
Project description
Extract metadata and data from FCS 3.0/3.1 files.
- Data extraction supports file formats:
Mode: List (L)
Datatypes: I, F, D
- Implemented parameter data set options:
raw
channel values
scale values (log10, gain)
channel and scale combined into one data set
fluorescence compensation
log10 scaled fluorescence compensation
- Metadata extraction features:
merge or separate csv files
rolling mean for any keyword with a numeric value
append new fcs files to previously generated metadata csv file
Installation
python setup.py install
Command Line Usage
See USAGE for expanded details.
To see a list of available commands and arguments, run ‘’xfcsdata –help’’ or ‘’xfcsmeta –help’’
extract data: xfcsdata [options] extract metadata: xfcsmeta [options]
Requirements
Python 3.5 or greater
numpy
pandas
License
xfcs is released under the BSD 2-clause license. See LICENSE for details.
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