freequant

Perform label-free quantification via precursor (MS1) abundances and spectral counting.

Usage

philosopher freequant [files]

Flags

--dir

Folder path containing the raw files

--isolated

Use the isolated ion instead of the selected ion for quantification

--ptw

Specify the time windows for the peak (minute) (default 0.2).

--tol

M/Z tolerance in PPM (default 10).

Example

Use spectra information from all mz files and, based on the peptide identifications, extract the given intensities. The resulting intensities will be stored inside the workspace, there is no output from this command.

philosopher freequant --dir mz/