README.md

In davidsbutcher/batchFLASH: Run FLASHDeconv and plot results in batch mode

batchFLASH

Installation

Install from GitHub:

remotes::install_github("davidsbutcher/batchFLASH")

Usage

To run all raw files in a directory:

run_batch_FD(
   "C:/Users/Scientist/Documents/raw_file_directory",
   "C:/Users/Scientist/Documents/batchFLASH_output/good_data"
)

To run a single raw file:

run_batch_FD(
   "C:/Users/Scientist/Documents/raw_file_directory/good_raw_file.raw",
   "C:/Users/Scientist/Documents/batchFLASH_output/good_data"
)

Arguments

• inputDir Can be an mzML file or a directory containing mzML files.

• outputDir Output directory for tab-delimited text files generated by FLASHDeconv.

• FDargs Arguments to FLASHDeconv. Defaults to c("-RTwindow 20", "-minRTspan 3").

License and attribution

The FLASHDeconv binary is part of the OpenMS software library and is licensed under the three-clause BSD license (see bin/license/OpenMS/LICENSE.txt).

Qt Core is licensed under LGPL-3. Third-party modules included in Qt Core and their respective licenses are listed at the Qt Core website.

All other components are written by David S. Butcher and available under Creative Commons CC0.

davidsbutcher/batchFLASH documentation built on June 23, 2020, 12:06 a.m.