ssm_trim: Standards Simulation Method
In xia-lab/MetaboAnalystR3.0: An R Package for Comprehensive Analysis of Metabolomics Data
Description
Usage
Arguments
Author(s)
View source: R/data_trimming.R
Description
Whole mass spectra will be divided as 4 bins according to the mz range. Trimming
the raw with slide window method in every bins and retained the windows with highest scan intensity
and remove other scan signal in mz dimension. Then the data will be trimed again in the RT dimension
with slide window method. The window with highest intensity scans will be kept. After the timming
alongside mz and RT dimension, the peaks not only the high intensity peaks, but also the relatively
low intensity peaks will also be retained as the 'simulated standards' data for parameters optimization.
Usage
1
ssm_trim(raw_data, ms_list, rt.idx)
Arguments
raw_data
MSnExp object, the raw data that has been read in memory.
ms_list
List, the names list of all scans.
rt.idx
Numeric, the retention time percentage, from 0 to 1. Default is 1/15.
Author(s)
Zhiqiang Pang zhiqiang.pang@mail.mcgill.ca Jeff Xia jeff.xia@mcgill.ca
Mcgill University
License: GNU GPL (>= 2)
xia-lab/MetaboAnalystR3.0 documentation built on May 6, 2020, 11:03 p.m.
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Description Usage Arguments Author(s)
View source: R/data_trimming.R
Description
Whole mass spectra will be divided as 4 bins according to the mz range. Trimming the raw with slide window method in every bins and retained the windows with highest scan intensity and remove other scan signal in mz dimension. Then the data will be trimed again in the RT dimension with slide window method. The window with highest intensity scans will be kept. After the timming alongside mz and RT dimension, the peaks not only the high intensity peaks, but also the relatively low intensity peaks will also be retained as the 'simulated standards' data for parameters optimization.
Usage
1 | ssm_trim(raw_data, ms_list, rt.idx)
|
Arguments
raw_data |
MSnExp object, the raw data that has been read in memory. |
ms_list |
List, the names list of all scans. |
rt.idx |
Numeric, the retention time percentage, from 0 to 1. Default is 1/15. |
Author(s)
Zhiqiang Pang zhiqiang.pang@mail.mcgill.ca Jeff Xia jeff.xia@mcgill.ca Mcgill University License: GNU GPL (>= 2)
R Package Documentation
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We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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