PeakPickerIterative

Options

version

Version of the tool that generated this parameters file.

log

Name of log file (created only when specified)

debug

Sets the debug level

threads

Sets the number of threads allowed to be used by the TOPP tool

no_progress

Disables progress logging to command line

force

Overrides tool-specific checks

test

Enables the test mode (needed for internal use only)

signal_to_noise_

Signal to noise value, each peak is required to be above this value (turn off by setting it to 0.0)

peak_width

Expected peak width half width in Dalton - peaks will be extended until this half width is reached (even if the intensitity is increasing). In conjunction with check_width_internally it will also be used to remove peaks whose spacing is larger than this value.

spacing_difference

Difference between peaks in multiples of the minimal difference to continue. The higher this value is set, the further apart peaks are allowed to be to still extend a peak. E.g. if the value is set to 1.5 and in a current peak the minimal spacing between peaks is 10 mDa, then only peaks at most 15 mDa apart will be added to the peak.

sn_bin_count_

Bin count for the Signal to Noise estimation.

nr_iterations_

Nr of iterations to perform (how many times the peaks are re-centered).

sn_win_len_

Window length for the Signal to Noise estimation.

check_width_internally

Delete peaks where the spacing is larger than the peak width (should be set to true to avoid artefacts)

ms1_only

Only do MS1

clear_meta_data

Delete meta data about peak width

Views

PeakPickerIterative Std Output

The text sent to standard out during the execution of PeakPickerIterative.

PeakPickerIterative Error Output

The text sent to standard error during the execution of PeakPickerIterative. (If it appears in gray, it's the output of a previously failing run which is preserved for your trouble shooting.)

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