Files in Coayala/MetaboTandem
Pipeline for the analysis of LC-MS/MS data
.Rbuildignore
.github/.gitignore
.github/workflows/pkgdown.yaml
.gitignore
DESCRIPTION
LICENSE
LICENSE.md
MetaboTandem.Rproj
NAMESPACE
R/MetaboTandem-package.R
R/Module_annotation.R
R/Module_annotation_SIRIUS.R
R/Module_autotuner.R
R/Module_diff.R
R/Module_downloadResults.R
R/Module_gapFilling.R
R/Module_loadData.R
R/Module_multivariate.R
R/Module_peakPicking.R
R/Module_spectraAlignment.R
R/Module_statsSetup.R
R/Module_summary.R
R/UI_annotation_app.R
R/UI_colorpicker.R
R/UI_database_app.R
R/UI_home_app.R
R/UI_main.R
R/app.R
R/functions_annotation.R
R/functions_annotation_SIRIUS.R
R/functions_autotuner.R
R/functions_chromatogram_plot.R
R/functions_create_db.R
R/functions_extra_ui.R
R/functions_extract.R
R/functions_from_metid.R
R/functions_preprocessing.R
R/functions_read_ms2.R
R/functions_stats.R
R/functions_utility.R
R/functions_xcms_gnps_integration.R
R/modified_writeMgfData.R
R/old_app.R
R/rp_data.R
R/utils-pipe.R
README.md
_pkgdown.yml
app.R
data/rp_data.rda
docs/.nojekyll
docs/404.html
docs/LICENSE-text.html
docs/LICENSE.html
docs/authors.html
docs/deps/bootstrap-5.1.0/bootstrap.bundle.min.js
docs/deps/bootstrap-5.1.0/bootstrap.bundle.min.js.map
docs/deps/bootstrap-5.1.0/bootstrap.min.css
docs/deps/data-deps.txt
docs/deps/jquery-3.6.0/jquery-3.6.0.js
docs/deps/jquery-3.6.0/jquery-3.6.0.min.js
docs/deps/jquery-3.6.0/jquery-3.6.0.min.map
docs/index.html
docs/link.svg
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/MetaboTandem-package.html
docs/reference/MetaboTandemApp.html
docs/reference/alignSpectraUI.html
docs/reference/apply_alignment.html
docs/reference/apply_correspondence.html
docs/reference/apply_gap_filling.html
docs/reference/apply_peak_picking.html
docs/reference/calculate_bpc.html
docs/reference/calculate_tic.html
docs/reference/centroid_check.html
docs/reference/extract_MS2.html
docs/reference/extract_feature_definition.html
docs/reference/extract_features.html
docs/reference/extract_number_peaks.html
docs/reference/extract_spectra_table.html
docs/reference/gapFillingUI.html
docs/reference/index.html
docs/reference/load_dataServer.html
docs/reference/load_dataUI.html
docs/reference/load_spectra_data.html
docs/reference/metadataServer.html
docs/reference/metadataUI.html
docs/reference/peakPickingServer.html
docs/reference/peakPickingUI.html
docs/reference/pipe.html
docs/reference/spectraServer.html
docs/reference/spectraUI.html
docs/reference/test_peak_picking.html
docs/search.json
docs/sitemap.xml
inst/extdata/RP_1_test.mzML
inst/extdata/RP_2_test.mzML
man/MetaboTandem-package.Rd
man/MetaboTandemApp.Rd
man/alignSpectraUI.Rd
man/annotate_CAMERA.Rd
man/annotate_SIRIUS.Rd
man/annotationappUI.Rd
man/apply_alignment.Rd
man/apply_correspondence.Rd
man/apply_gap_filling.Rd
man/apply_peak_picking.Rd
man/apply_peak_refinement.Rd
man/autotunerUI.Rd
man/calculate_bpc.Rd
man/calculate_tic.Rd
man/centroid_check.Rd
man/colorPickerUI.Rd
man/create_col_vector.Rd
man/create_gnps_db.Rd
man/create_massbank_db.Rd
man/create_mona_db.Rd
man/cycloess.norm.Rd
man/dbAnnotationServer.Rd
man/dbAnnotationUI.Rd
man/diffExpressionUI.Rd
man/download_ResultspreprocUI.Rd
man/extract_MS2_consensus.Rd
man/extract_autotuner.Rd
man/extract_feature_definition.Rd
man/extract_features.Rd
man/extract_number_peaks.Rd
man/extract_spectra_table.Rd
man/fix_entries.Rd
man/gapFillingUI.Rd
man/global.norm.Rd
man/home_ui.Rd
man/identify_peak.Rd
man/load_dataServer.Rd
man/load_dataUI.Rd
man/load_spectra_data.Rd
man/max.norm.Rd
man/mean.norm.Rd
man/median.norm.Rd
man/merge_SIRIUS_files.Rd
man/metadataServer.Rd
man/metadataUI.Rd
man/mod_get_identification_table.Rd
man/mod_identify_all.Rd
man/mod_metIdentify.Rd
man/multivariateUI.Rd
man/nmds_ordination.Rd
man/norm_methods_all.Rd
man/normalize_by_all.Rd
man/old_MetaboTandemApp.Rd
man/parse_ms2_for_SIRIUS.Rd
man/peakPickingServer.Rd
man/peakPickingUI.Rd
man/pipe.Rd
man/read_mgf.Rd
man/read_msp.Rd
man/rp_data.Rd
man/separate_MS2.Rd
man/siriusAnnotationServer.Rd
man/siriusAnnotationUI.Rd
man/spectraServer.Rd
man/spectraUI.Rd
man/start_autotuner.Rd
man/statsSetupUI.Rd
man/test_peak_picking.Rd
man/ui_main.Rd
man/vsn.norm.Rd
tests/testthat.R
tests/testthat/test-preprocessing.R
tests/testthat/test-utility_functions.R
