Description Usage Arguments Value
View source: R/svs_batch_fit.R
Standard SVS 1H brain analysis pipeline.
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metab |
filepath or mrs_data object containing MRS metabolite data. |
basis |
basis set object to use for analysis. |
w_ref |
filepath or mrs_data object containing MRS water reference data. |
mri_seg |
filepath or nifti object containing segmented MRI data. |
mri |
filepath or nifti object containing anatomical MRI data. |
output_dir |
directory path to output fitting results. |
extra |
data.frame with one row containing additional information to be attached to the fit results table. |
decimate |
option to decimate the input data by a factor of two. The default value of NULL does not perform decimation unless the spectral width is greater than 20 PPM. |
rats_corr |
option to perform rats correction, defaults to TRUE. |
ecc |
option to perform water reference based eddy current correction, defaults to FALSE. |
comb_dyns |
option to combine dynamic scans, defaults to TRUE. |
hsvd_filt |
option to apply hsvd water removal, defaults to FALSE. |
scale_amps |
option to scale metabolite amplitude estimates, defaults to TRUE. |
te |
metabolite mrs data echo time in seconds. |
tr |
metabolite mrs data repetition time in seconds. |
preproc_only |
only perform the preprocessing steps and omit fitting. The preprocessed metabolite data will be returned in this case. |
method |
analysis method to use, see fit_mrs help. |
opts |
options to pass to the analysis method. |
a fit_result or mrs_data object depending on the preproc_only option.
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