Docstring:
Usage: qiime pepsirf infoSumOfProbes [OPTIONS]
Gathers the sum of probes per sample in the matrix using pepsirf's info
module
Inputs:
--i-input ARTIFACT FeatureTable[Normed | NormedDifference |
NormedDiffRatio | RawCounts | NormedSized]
An input score matrix to gather information from.
[required]
Parameters:
--p-outfile TEXT The outfile that will produce a list of inputs to
PepSIRF. [default: './info.out']
--p-pepsirf-binary TEXT
The binary to call pepsirf on your system.
[default: 'pepsirf']
Outputs:
--o-sum-of-probes-output ARTIFACT
InfoSumOfProbes InfoSumOfProbes file, The first entry in each column
will be the name of the sample, and the second will be
the sum of the peptide/probe scores for the sample.
[required]
Miscellaneous:
--output-dir PATH Output unspecified results to a directory
--verbose / --quiet Display verbose output to stdout and/or stderr during
execution of this action. Or silence output if
execution is successful (silence is golden).
--example-data PATH Write example data and exit.
--citations Show citations and exit.
--help Show this message and exit.
Import:
from qiime2.plugins.pepsirf.methods import infoSumOfProbes
Docstring:
pepsirf info (sum of probes) module
Gathers the sum of probes per sample in the matrix using pepsirf's info
module
Parameters
----------
input : FeatureTable[Normed | NormedDifference | NormedDiffRatio | RawCounts | NormedSized]
An input score matrix to gather information from.
outfile : Str, optional
The outfile that will produce a list of inputs to PepSIRF.
pepsirf_binary : Str, optional
The binary to call pepsirf on your system.
Returns
-------
sum_of_probes_output : InfoSumOfProbes
InfoSumOfProbes file, The first entry in each column will be the name
of the sample, and the second will be the sum of the peptide/probe
scores for the sample.
