- SNR is now defined as the max data point divided by the standard deviation of the noise (n.b. factor of two has been removed in-line with upcoming terminology paper).
- Default rats method improved to work with multidimensional datasets.
- Added norm_mrs function to normalise the intensity of spectral data.
- Added bc_constant function to correct spectral baselines by a constant offset.
- Added re_weighting function to apply a resolution enhancement weighting to the FID.
- Performance improvement for apodise_xy function.
- sd function now works for mrs_data.
- Added 2D MRSI support for Siemens IMA format.

- Bug fix for using auto_phase function with a single spectrum.
- Bug fix for comb_coils not returning unaveraged data when requested.
- Added options to combine metabolite signals from the stackplot of a fit object and adjust the plot margins.
- Added comb_fits function.
- Added collapse_to_dyns function for mrs_fit objects.
- RDA reader now extracts geometry information.

- Added options to omit basis signals, change label names and combine lipid and MM signals from the stackplot of a fit object.
- Added auto_phase function for zeroth order phase-correction of simple spectra.
- Added get_subset function to aid MRSI slicing.
- Added decimate_mrs function.
- Added fit_amps function to quickly extract amplitude estimates from a fit object.
- Bug fix for int_spec function.
- sim_basis function arguments updated to accept acq_par objects.

- Various bug fixes for Siemens TWIX reader.
- rats and tdsr functions now use the mean spectrum as the default reference.
- Added the option to remove the x axis in an mrs_data plot.
- Added ylim and y_scale options to fit plotting.
- Added %$% operator from magrittr package.
- Added an interpolation option to calc_spec_snr.
- Added hline and vline options to image.mrs_data.

- Fit results stackplot now has the option to display labels.
- Added the option to reverse eddy current correction.
- Improved GE p-file reader.
- diff function can now be applied to mrs_data objects.
- Complex functions: Re, Im, Mod, Arg and Conj can now be applied to mrs_data objects.
- Default simulations for Glc and NAAG have been improved.

- Added mar argument to plot command.
- td2fd and fd2td now give warnings when used with data already in the target domain.
- Improved documentation formatting consistency and fixed some spelling errors.
- Added rats method.

- The names of in-built pulse sequence functions now all start with seq_* to make them easier to find.
- Added new functions to simulate the following MRS sequences: CPMG, MEGA-PRESS, STEAM, sLASER. sLASER sequence kindly contributed by Pierre-Gilles Henry.
- Bug fix for get_mol_names function.
- stackplot function now accepts labels argument and time-domain plotting.
- def_acq_paras function now accepts arguments to override the defaults.
- Added a source field to mol.paras object to cite the origin of the values.
- Option to restore plotting par defaults.
- The magrittr pipe operator is now exported.

- Updated plotting modes to be one of : "re", "im", "mod" or "arg".
- Updated int_spec function to use "re", "im", or "mod".
- Added a function to replicate data across a particular dimension.
- Added a convenience function to simulate normal looking 1H brain MRS data.
- phase and shift functions now accept vector inputs.

- Added new function for frequency drift correction.
- Added support for Siemens ima and TWIX SVS data.
- Added support for GE p-file SVS data.
- Added apply_axes fn.
- Support for reading SPM style segmentation results (spm_pve2categorical).

- Interactive plotting function added for fit results - plot_fit_slice_inter.
- Bug fix for appending dynamic results.
- Bug fix for reading list data files without reference data.
- Bug fix for append_dyns function.
- basis2mrs_data function has been extended to allow the summation of basis elements and setting of individual amplitudes.
- Added a shift function for manual frequency shift adjustment.
- Added initial unit tests and automated coveralls checking.

- A default brain PRESS basis is now simulated by the fit_mrs function when the basis argument isn't specified.
- Added calc_peak_info function for simple singlet analyses.
- crop_spec function now maintains the original frequency scale.
- The basis set used for analyses has now been added to the fit result object.
- Bug fix for simulating basis sets with one element.
- lb function can now be used with basis-set objects.
- Bug fix for spar_sdat reader for non-localised MRS.
- AppVeyor now being used to test Windows compatibility - John Muschelli.

- Bug fix for SPAR/SDAT SVS voxel dimensions.
- MRSI support added for Philips SPAR/SDAT data.
- Fit plots now default to the full spectral range unless xlim is specified.
- Fit plots allow the x, y, z, coil, dynamic indices to be specified.
- Added the option to subtract the baseline from fit plots.

- Added stackplot method for fit objects.
- Added functions for registering and visualising SVS volumes on images and performing partial volume correction.
- Philips "list data" also now reads noise scans.
- calc_coil_noise_cor, calc_coil_noise_sd functions added to aid coil combination.
- Documentation updates for plotting methods.
- Added some simulation methods to userland.

- Added Siemens RDA format reader.
- Added Philips "list data" format reader.
- Added Bruker paravision format reader.
- Added PROPACK option for HSVD based filtering.
- Added a coil combination function.
- Bug fix for incorrect ppm scale on fit plots when fs != 2000Hz.
- Bug fix for VARPRO analytical jacobian calculation.

- First public release.

neuroconductor-devel-releases/spant documentation built on Feb. 14, 2020, 1:34 p.m.

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