Package: albatross 0.3-8
albatross: PARAFAC Analysis of Fluorescence Excitation-Emission Matrices
Perform parallel factor analysis (PARAFAC: Hitchcock, 1927) <doi:10.1002/sapm192761164> on fluorescence excitation-emission matrices: handle scattering signal and inner filter effect, scale the dataset, fit the model; perform split-half validation or jack-knifing. Modified approaches such as Whittaker interpolation, randomised split-half, and fluorescence and scattering model estimation are also available. The package has a low dependency footprint and has been tested on a wide range of R versions.
Authors:
albatross_0.3-8.tar.gz
albatross_0.3-8.zip(r-4.5)albatross_0.3-8.zip(r-4.4)albatross_0.3-8.zip(r-4.3)
albatross_0.3-8.tgz(r-4.4-any)albatross_0.3-8.tgz(r-4.3-any)
albatross_0.3-8.tar.gz(r-4.5-noble)albatross_0.3-8.tar.gz(r-4.4-noble)
albatross_0.3-8.tgz(r-4.4-emscripten)albatross_0.3-8.tgz(r-4.3-emscripten)
albatross.pdf |albatross.html✨
albatross/json (API)
NEWS
| # Install 'albatross' in R: |
| install.packages('albatross', repos = c('https://ikrylovmsu.r-universe.dev', 'https://cloud.r-project.org')) |
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 7 months agofrom:111b0b2e5e. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 05 2024 |
| R-4.5-win | OK | Nov 05 2024 |
| R-4.5-linux | OK | Nov 05 2024 |
| R-4.4-win | OK | Nov 05 2024 |
| R-4.4-mac | OK | Nov 05 2024 |
| R-4.3-win | OK | Nov 05 2024 |
| R-4.3-mac | OK | Nov 05 2024 |
Exports:absindexdiverging.coloursfeemfeemcorcondiafeemcubefeemflamefeemgridfeemifefeemindexfeemjackknifefeemlistfeemparafacfeemscalefeemscatterfeemsplithalfmarine.coloursrescalewrite.openfluor
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| PARAFAC Analysis of Fluorescence Excitation-Emission Matrices | albatross-package albatross |
| Extract or replace parts of FEEM objects | [.feem [<-.feem |
| Extract or replace parts of FEEM cubes | [.feemcube [<-.feemcube |
| Functions of absorbance data | absindex |
| Transform a FEEM object into a data.frame | as.data.frame.feem as.data.frame.feemcube |
| Create a fluorescence excitation-emission matrix object | feem feem.character feem.connection feem.data.frame feem.matrix t.feem |
| Core consistency diagnostic for PARAFAC models | feemcorcondia print.feemcorcondia |
| Data cubes of fluorescence excitation-emission matrices | as.list.feemcube feemcube feemcube.array feemcube.feemflame feemcube.feemjackknife feemcube.feemparafac feemcube.feemsplithalf feemcube.list |
| Fluorescence and scAttering Model Estimation | coef.feemflame feemflame fitted.feemflame plot.feemflame residuals.feemflame |
| Interpolate FEEMs on a given wavelength grid | feemgrid feemgrid.feem feemgrid.feemcube feemgrid.list |
| Absorbance-based inner filter effect correction | feemife feemife.feem feemife.feemcube feemife.list |
| Fluorescence indices and peak values | feemindex feemindex.feem feemindex.feemcube feemindex.list |
| Jack-knife outlier detection in PARAFAC models | coef.feemjackknife feemjackknife plot.feemjackknife |
| Create lists of FEEM objects | feemlist feemlist.character feemlist.EEM feemlist.eemlist |
| Compute PARAFAC on a FEEM cube object and access the results | coef.feemparafac feemparafac fitted.feemparafac plot.feemparafac print.feemparafac reorder.feemparafac rescale rescale.feemparafac residuals.feemparafac |
| Synthetic fluorescence excitation-emission matrices and absorbance spectra | absorp cube feems |
| Rescale FEEM spectra to a given norm and remember the scale factor | feemscale feemscale.feem feemscale.feemcube feemscale.list |
| Handle scattering signal in FEEMs | feemscatter feemscatter.feem feemscatter.feemcube feemscatter.list |
| Split-half analysis of PARAFAC models | coef.feemsplithalf feemsplithalf plot.feemsplithalf print.feemsplithalf |
| Perceptually uniform palettes | diverging.colours marine.colours |
| Plot a FEEM object | plot.feem plot.feem.resid plot.feemcube |
| Export a PARAFAC model for the OpenFluor database | write.openfluor |
