lifescale-utils 0.0.7

Lifescale utility software.

lifescale_utils

Data analysis utilities for lifescale.

Programs:

lsgui

lsgui starts the graphical user interface (gui) of lifescale-utils. It provides toe following main features:

• Read lifescale xlsm files
• Visualize the data from the xlsm file and calculate various statistics
• Assess the mass distribution of samples by histograms and flag invalid data
• Write the cleand data to csv files (see ls2csv)

Usage:

usage: lsgui [-h]

Starts lifescale utils gui.

optional arguments:
  -h, --help  show this help message and exit

ls2csv

ls2csv is a command line program that converts xlsm files written by lifescale units to csv files. The following files
are created:

• Masses_<run-name>_<guid>.csv: Data series from the sheet AcquisitionIntervals.
• Metadata_<run-name>_<guid>.csv: Data from the sheet PanelData.
• SampleSummary_<run-name>_<guid>.csv: Data from the sheet IntervalAnalysis plus sample related data from AcquisitionIntervals. <run-name> and <guid> are the taken from the fields Name and Guid (if available) from the settings sheet of the xml file.

Usage:

usage: ls2csv [-h] -i INPUT_XLSM -o OUT_DIR [-nv] [-s] [-t]

Conversion from lifescale xlsm output to csv files

options:
  -h, --help            show this help message and exit
  -i INPUT_XLSM, --input-xlsm INPUT_XLSM
                        Path and name of the input xlsm file created by
                        lifescale. (default: None)
  -o OUT_DIR, --out-dir OUT_DIR
                        Output directory for the CSV files. (default: None)
  -nv, --not-verbose    Disable command line status messages. (default: False)
  -s, --sample-stats    Calculate sample statistics of masses (median, std.
                        deviation, quartiles, interquartile range) and add
                        them to the SampleSummary output CSV file (columns:
                        Mass_median, Mass_std, Mass_q25, Mass_q75,Mass_iqr).
                        (default: False)
  -t, --sort-masses-by-time
                        Sort data in the Masses CSV file by acquisition time.
                        (default: False)
                        

Python package and installation

Lifescale_utils is available at https://pypi.org/project/lifescale-utils/

Installation: pip install lifescale_utils

License and copyright

Copyright (C) 2023 Andreas Hellerschmied ([e-mail])

This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program. If not, see https://www.gnu.org/licenses/.

Funding

lifescale_utils was funded by the Centre for Microbiology and Environmental Systems Science (CMES) of the University of Vienna (https://cmess.univie.ac.at/).