Docstring:
Usage: qiime pepsirf infoSNPN [OPTIONS]
Gathers the number of samples and peptides in the matrix using pepsirf's
info modules
Inputs:
--i-input ARTIFACT FeatureTable[Normed | NormedDifference |
NormedDiffRatio | RawCounts | NormedSized]
An input score matrix to gather information from.
[required]
Parameters:
--p-get TEXT Choices('samples', 'probes')
Specify weather you want to collect sample names or
probe/peptide names [required]
--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-snpn-output ARTIFACT
InfoSNPN InfoSNPN file in the form of a file with no header,
one sample name per line. [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 infoSNPN
Docstring:
pepsirf info (samples/peptide names) module
Gathers the number of samples and peptides in the matrix using pepsirf's
info modules
Parameters
----------
input : FeatureTable[Normed | NormedDifference | NormedDiffRatio | RawCounts | NormedSized]
An input score matrix to gather information from.
get : Str % Choices('samples', 'probes')
Specify weather you want to collect sample names or probe/peptide names
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
-------
snpn_output : InfoSNPN
InfoSNPN file in the form of a file with no header, one sample name per
line.
