Package: pam 2.2.1

pam: Fast and Efficient Processing of PAM Data

Processing Chlorophyll Fluorescence & P700 Absorbance data. Four models are provided for the regression of Pi curves, which can be compared with each other in order to select the most suitable model for the data set. Control plots ensure the successful verification of each regression. Bundled output of alpha, ETRmax, Ik etc. enables fast and reliable further processing of the data.

Authors:Julien Böhm [cre, aut], Philipp Schrag [aut]

pam_2.2.1.tar.gz
pam_2.2.1.zip(r-4.7)pam_2.2.1.zip(r-4.6)pam_2.2.1.zip(r-4.5)
pam_2.2.1.tgz(r-4.6-any)pam_2.2.1.tgz(r-4.5-any)
pam_2.2.1.tar.gz(r-4.7-any)pam_2.2.1.tar.gz(r-4.6-any)
pam_2.2.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
pam/json (API)

# Install 'pam' in R:
install.packages('pam', repos = c('https://julienboehm.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/biotoolbox/pam/issues

On CRAN:

Conda:

1.85 score 4 scripts 492 downloads 36 exports 31 dependencies

Last updated from:1f768c49ee. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK181
source / vignettesOK176
linux-release-x86_64OK154
macos-release-arm64OK164
macos-oldrel-arm64OK173
windows-develOK101
windows-releaseOK142
windows-oldrelOK104
wasm-releaseOK108

Exports:combo_plot_controlcompare_regression_models_ETR_Icompare_regression_models_ETR_IIeilers_peeters_default_start_value_aeilers_peeters_default_start_value_beilers_peeters_default_start_value_ceilers_peeters_generate_regression_ETR_Ieilers_peeters_generate_regression_ETR_IIeilers_peeters_modifiedplatt_default_start_value_alphaplatt_default_start_value_betaplatt_default_start_value_psplatt_generate_regression_ETR_Iplatt_generate_regression_ETR_IIplatt_modifiedplot_controlread_dual_pam_dataread_dual_pam_single_channel_fluo_dataread_dual_pam_single_channel_p700_dataread_junior_pam_dataread_pam_2500_dataread_universal_datavollenweider_default_start_value_avollenweider_default_start_value_alphavollenweider_default_start_value_nvollenweider_default_start_value_pmaxvollenweider_generate_regression_ETR_Ivollenweider_generate_regression_ETR_IIvollenweider_modifiedwalsby_default_start_value_alphawalsby_default_start_value_betawalsby_default_start_value_etr_maxwalsby_generate_regression_ETR_Iwalsby_generate_regression_ETR_IIwalsby_modifiedwrite_model_result_csv

Dependencies:clicowplotcpp11data.tablefarverggplot2ggthemesgluegridExtragtableisobandlabelinglifecyclemagrittrMetricsminpack.lmpillarpkgconfigpurrrR6RColorBrewerrlangS7scalesstringistringrtibbleutf8vctrsviridisLitewithr

Readme and manuals

Help Manual

Help pageTopics
Combined ETR Plot and Summary Tablecombo_plot_control
Compare Regression Models for ETR Icompare_regression_models_ETR_I
Compare Regression Models for ETR IIcompare_regression_models_ETR_II
Default start valueeilers_peeters_default_start_value_a
Default start valueeilers_peeters_default_start_value_b
Default start valueeilers_peeters_default_start_value_c
Eilers-Peeters Regression for ETR Ieilers_peeters_generate_regression_ETR_I
Eilers-Peeters Regression for ETR IIeilers_peeters_generate_regression_ETR_II
Eilers & Peeters Model Modificationeilers_peeters_modified
Default start valueplatt_default_start_value_alpha
Default start valueplatt_default_start_value_beta
Default start valueplatt_default_start_value_ps
Platt Regression for ETR Iplatt_generate_regression_ETR_I
Platt Regression for ETR IIplatt_generate_regression_ETR_II
Platt Model Modificationplatt_modified
Plot Controlplot_control
Read and Process DualPAM Dataread_dual_pam_data
Read and Process DualPAM Data Single Chanel Mode Fluoread_dual_pam_single_channel_fluo_data
Read and Process DualPAM Data Single Chanel Mode P700read_dual_pam_single_channel_p700_data
Read and Process Junior PAM Dataread_junior_pam_data
Read and Process PAM 2500 Dataread_pam_2500_data
Read and Process Universal PAM Dataread_universal_data
Default start valuevollenweider_default_start_value_a
Default start valuevollenweider_default_start_value_alpha
Default start valuevollenweider_default_start_value_n
Default start valuevollenweider_default_start_value_pmax
Vollenweider Regression for ETR Ivollenweider_generate_regression_ETR_I
Vollenweider Regression for ETR IIvollenweider_generate_regression_ETR_II
Vollenweider Model Modificationvollenweider_modified
Default start valuewalsby_default_start_value_alpha
Default start valuewalsby_default_start_value_beta
Default start valuewalsby_default_start_value_etr_max
Walsby Regression for ETR Iwalsby_generate_regression_ETR_I
Walsby Regression for ETR IIwalsby_generate_regression_ETR_II
Walsby Model Modificationwalsby_modified
Write Model Result CSVwrite_model_result_csv