MaRaClusterAdapter

Facilitate input to MaRaCluster and reintegrate.

Web Documentation for MaRaClusterAdapter

Options

version
Version of the tool that generated this parameters file.
output_directory
Output directory for MaRaCluster original consensus output
pcut
log(p-value) cutoff, has to be < 0.0. Default: -10.0.
min_cluster_size
minimum number of spectra in a cluster for consensus spectra
verbose
Set verbosity of output: 0=no processing info, 5=all.
precursor_tolerance
Precursor monoisotopic mass tolerance
precursor_tolerance_units
tolerance_mass_units 0=ppm, 1=Da
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)

Input Ports

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Input file(s) [mzML,mgf]
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Optional idXML Input file(s) in the same order as mzML files - for Maracluster Cluster annotation [idXML,opt.]

Output Ports

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Output file in idXML format [idXML]
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Consensus spectra in mzML format [mzML]

Popular Predecessors

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Popular Successors

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Views

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

Workflows

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Links

Developers

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