Files in devonjkohler/MSstatsPTM
Statistical Characterization of Post-translational Modifications

.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LICENSE.md
NAMESPACE
R/MSstatsPTM.R R/MaxQtoMSstatsPTMFormat.R R/ProgenesistoMSstatsPTMFormat.R R/RcppExports.R R/SpectronauttoMSstatsPTMFormat.R R/dataDoc.R R/dataProcessPlotsPTM.R R/dataSummarizationPTM.R R/dataSummarizationPTM_TMT.R R/groupComparisonPTM.R R/groupComparisonPlotsPTM.R R/locatePTM.R R/msstatsptm-package.R R/utils_checks.R R/utils_converters.R R/utils_dataProcessPlots.R R/utils_groupComparison.R R/utils_groupComparisonPlots.R README.md
_pkgdown.yml
data/raw.input.rda
data/raw.input.tmt.rda
data/summary.data.rda
data/summary.data.tmt.rda
docs/404.html
docs/LICENSE.html
docs/articles/MSstatsPTM_LabelFree_Workflow.html
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/heatmap-1.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/heatmap-2.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/heatmap-3.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/profileplot-1.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/profileplot-2.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/profileplot-3.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/profileplot-4.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/profileplot-5.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/profileplot-6.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/profileplot-7.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/profileplot-8.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/qcplot-1.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/volcano-1.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/volcano-2.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/figure-html/volcano-3.png
docs/articles/MSstatsPTM_LabelFree_Workflow_files/header-attrs-2.7/header-attrs.js
docs/articles/MSstatsPTM_LabelFree_Workflow_files/header-attrs-2.8/header-attrs.js
docs/articles/MSstatsPTM_TMT_Workflow.html
docs/articles/MSstatsPTM_TMT_Workflow_files/figure-html/meatmap-1.png
docs/articles/MSstatsPTM_TMT_Workflow_files/figure-html/meatmap-2.png
docs/articles/MSstatsPTM_TMT_Workflow_files/figure-html/meatmap-3.png
docs/articles/MSstatsPTM_TMT_Workflow_files/figure-html/profileplot-1.png
docs/articles/MSstatsPTM_TMT_Workflow_files/figure-html/profileplot-2.png
docs/articles/MSstatsPTM_TMT_Workflow_files/figure-html/qcplot-1.png
docs/articles/MSstatsPTM_TMT_Workflow_files/figure-html/volcano-1.png
docs/articles/MSstatsPTM_TMT_Workflow_files/figure-html/volcano-2.png
docs/articles/MSstatsPTM_TMT_Workflow_files/figure-html/volcano-3.png
docs/articles/MSstatsPTM_TMT_Workflow_files/header-attrs-2.7/header-attrs.js
docs/articles/MSstatsPTM_TMT_Workflow_files/header-attrs-2.8/header-attrs.js
docs/articles/index.html
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/link.svg
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/MSstatsPTM.html
docs/reference/MaxQtoMSstatsPTMFormat.html
docs/reference/ProgenesistoMSstatsPTMFormat.html
docs/reference/Rplot001.png
docs/reference/Rplot002.png
docs/reference/Rplot003.png
docs/reference/Rplot004.png
docs/reference/Rplot005.png
docs/reference/Rplot006.png
docs/reference/Rplot007.png
docs/reference/Rplot008.png
docs/reference/Rplot009.png
docs/reference/Rplot010.png
docs/reference/Rplot011.png
docs/reference/Rplot012.png
docs/reference/Rplot013.png
docs/reference/Rplot014.png
docs/reference/Rplot015.png
docs/reference/Rplot016.png
docs/reference/Rplot017.png
docs/reference/Rplot018.png
docs/reference/SpectronauttoMSstatsPTMFormat.html
docs/reference/annotSite.html
docs/reference/dataProcessPlotsPTM-1.png
docs/reference/dataProcessPlotsPTM-2.png
docs/reference/dataProcessPlotsPTM-3.png
docs/reference/dataProcessPlotsPTM.html
docs/reference/dataSummarizationPTM.html
docs/reference/dataSummarizationPTM_TMT.html
docs/reference/globalConverterPTM.html
docs/reference/groupComparisonPTM.html
docs/reference/groupComparisonPlotsPTM-1.png
docs/reference/groupComparisonPlotsPTM-10.png
docs/reference/groupComparisonPlotsPTM-11.png
docs/reference/groupComparisonPlotsPTM-12.png
docs/reference/groupComparisonPlotsPTM-13.png
docs/reference/groupComparisonPlotsPTM-14.png
docs/reference/groupComparisonPlotsPTM-15.png
docs/reference/groupComparisonPlotsPTM-16.png
docs/reference/groupComparisonPlotsPTM-17.png
docs/reference/groupComparisonPlotsPTM-18.png
docs/reference/groupComparisonPlotsPTM-2.png
docs/reference/groupComparisonPlotsPTM-3.png
docs/reference/groupComparisonPlotsPTM-4.png
docs/reference/groupComparisonPlotsPTM-5.png
docs/reference/groupComparisonPlotsPTM-6.png
docs/reference/groupComparisonPlotsPTM-7.png
docs/reference/groupComparisonPlotsPTM-8.png
docs/reference/groupComparisonPlotsPTM-9.png
docs/reference/groupComparisonPlotsPTM.html
docs/reference/index.html
docs/reference/locateMod.html
docs/reference/locatePTM.html
docs/reference/raw.input.html
docs/reference/raw.input.tmt.html
docs/reference/summary.data.html
docs/reference/summary.data.tmt.html
docs/reference/tidyFasta.html
inst/NEWS.rd
inst/extdata/O13297.fasta
inst/tinytest/test_dataSummarizationPTM.R inst/tinytest/test_dataSummarizationPTM_TMT.R inst/tinytest/test_groupComparisonPTM.R man/MSstatsPTM.Rd man/MaxQtoMSstatsPTMFormat.Rd man/ProgenesistoMSstatsPTMFormat.Rd man/SpectronauttoMSstatsPTMFormat.Rd man/annotSite.Rd man/dataProcessPlotsPTM.Rd man/dataSummarizationPTM.Rd man/dataSummarizationPTM_TMT.Rd man/groupComparisonPTM.Rd man/groupComparisonPlotsPTM.Rd man/locateMod.Rd man/locatePTM.Rd man/raw.input.Rd man/raw.input.tmt.Rd man/summary.data.Rd man/summary.data.tmt.Rd man/tidyFasta.Rd
src/.gitignore
src/RcppExports.cpp
src/model_adjustment.cpp
tests/tinytest.R
vignettes/.gitignore
vignettes/MSstatsPTM_LabelFree_Workflow.Rmd vignettes/MSstatsPTM_TMT_Workflow.Rmd
devonjkohler/MSstatsPTM documentation built on Dec. 19, 2021, 11:01 p.m.