API for samWieczorek/DAPAR2
Tools for the Differential Analysis of Proteins Abundance with R

Global functions
.GetMetacellTags Source code
.GetMetadataSlot Man page Source code
.GetRowdataSlot Man page Source code
.UpdateSEBasedOnAdjmat Source code
.aggregateFeatures4Prostar Source code
.onLoad Source code
.onUnload Source code
.write2excel Man page Source code
Add_Item_to_Dataset Man page Source code
AdjMatFilters Man page Source code
AggregateMetacell Man page Source code
BuildAdjacencyMatrix Man page Source code
BuildColumnToProteinDataset Man page Source code
BuildMetacell Man page Source code
Build_CC_list Source code
Children Man page Source code
ConnectedComp,QFeatures-method Man page
ConnectedComp,SummarizedExperiment-method Man page
ConnectedComp<- Man page
ConvertListToHtml Man page Source code
Convert_conf Man page Source code
Convert_server Man page Source code
Convert_ui Man page Source code
CountPep Man page Source code
DaparToolsehd, Man page
DaparToolshed Man page
DaparToolshed-aggregate Man page
ExtendPalette Man page Source code
FunctionFilter Man page Source code
FunctionFilter, Man page
FunctionFilter-class Man page
GetColorsForConditions Man page Source code
GetDetailedNbPeptides Man page Source code
GetDetailedNbPeptidesUsed Man page Source code
GetExtension Man page Source code
GetMetacell Man page Source code
GetMetacellTags,QFeatures-method Man page
GetMetacellTags,SummarizedExperiment-method Man page
GetNbPeptidesUsed Man page Source code
GetSoftAvailables Man page Source code
GetUniqueTags,QFeatures-method Man page
GetUniqueTags,SummarizedExperiment-method Man page
GraphPepProt Man page Source code
Keep_Items_from_Dataset Man page Source code
LH0 Man page Source code
LH0.lm Man page Source code
LH1 Man page Source code
LH1.lm Man page Source code
Metacell_DIA_NN Man page Source code
Metacell_generic Man page Source code
Metacell_maxquant Man page Source code
Metacell_proline Man page Source code
Parent Man page Source code
Pipelines Man page Source code
ProstarVersions Man page Source code
QFeatures-accessors Man page
QFeatures-excel Man page
QFeatures-filtering-oneSE Man page
QFeatures-utils Man page
ReplaceSpecialChars Man page Source code
Set_POV_MEC_tags Man page Source code
SymFilteringOperators Man page Source code
UpdateMetacellAfterImputation,SummarizedExperiment-method Man page
VariableFilter Man page
addColors Man page Source code
adjacency-matrix-filter Man page
aggQmetacell Man page Source code
aggregateFeatures4Prostar,QFeatures-method Man page
aggregateFeatures4Prostar,SummarizedExperiment-method Man page
aggregateIter Man page Source code
aggregateIterParallel Man page Source code
aggregateMean Man page Source code
aggregateMethods Man page Source code
aggregateSum Man page Source code
aggregateTopn Man page Source code
allPeptides Man page Source code
analysis,QFeatures-method Man page
analysis,SummarizedExperiment-method Man page
analysis<- Man page
build-design Man page
buildGraph Man page Source code
check.conditions Man page Source code
check.design Man page Source code
createQFeatures Man page Source code
create_ft_example Man page Source code
custom_metacell_colors Man page Source code
design-example Man page
design.qf,QFeatures-method Man page
design.qf<- Man page
display.CC.visNet Man page Source code
dl Man page
dl_server Man page Source code
dl_ui Man page Source code
filterFeaturesOneSE Man page
filterFeaturesOneSE, Man page
filterFeaturesOneSE,QFeatures-method Man page
filterFeaturesOneSE,SummarizedExperiment-method Man page
finalizeAggregation Man page Source code
ft Man page
ft_na Man page
fudge2LRT Man page Source code
get.pep.prot.cc Man page Source code
getListNbValuesInLines Man page Source code
getProteinsStats Man page Source code
hc_mvTypePlot2 Man page Source code
idcol,QFeatures-method Man page
idcol,SummarizedExperiment-method Man page
idcol<- Man page
inner.aggregate.iter Man page Source code
inner.aggregate.topn Man page Source code
inner.mean Man page Source code
inner.sum Man page Source code
is.OfType Man page Source code
last_assay Man page Source code
mainAssay Man page Source code
match.metacell Man page Source code
metacell-plots Man page
metacell-tree Man page
metacell.def Man page Source code
metacellHisto_HC Man page Source code
metacellPerLinesHistoPerCondition_HC Man page Source code
metacellPerLinesHisto_HC Man page Source code
metacombine Man page Source code
mod_Agregation_server Man page Source code
mod_Agregation_ui Man page Source code
mod_Filtering_server Man page Source code
mod_Filtering_ui Man page Source code
mod_Protein_Description_server Man page Source code Source code
mod_Protein_Description_ui Man page Source code Source code
mod_Protein_Filtering_server Man page Source code Source code
mod_Protein_Filtering_ui Man page Source code Source code
mod_Protein_Normalization_server Man page Source code Source code
mod_Protein_Normalization_ui Man page Source code Source code
mod_Protein_server Man page Source code Source code
mod_Protein_ui Man page Source code Source code
mod_agregation Man page
mod_buildDesign_server Man page Source code
mod_buildDesign_ui Man page Source code
mod_build_qMetacell_FunctionFilter_server Man page Source code
mod_build_qMetacell_FunctionFilter_ui Man page Source code
mod_convert Man page
mod_designExample_server Man page Source code
mod_designExample_ui Man page Source code
mod_ds_metacell_server Man page Source code
mod_ds_metacell_ui Man page Source code
mod_filterExample Man page
mod_filterExample_server Man page Source code
mod_filterExample_ui Man page Source code
mod_filtering Man page
mod_format_DT Man page
mod_format_DT_server Man page Source code
mod_format_DT_ui Man page Source code
mod_helpPopover Man page
mod_helpPopover_server Man page Source code
mod_helpPopover_ui Man page Source code
mod_infos_dataset Man page
mod_infos_dataset_server Man page Source code
mod_infos_dataset_ui Man page Source code
mod_inputGroup Man page
mod_inputGroup_server Man page Source code
mod_inputGroup_ui Man page Source code
mod_metacell_tree_server Man page Source code
mod_metacell_tree_ui Man page Source code
mod_open_dataset Man page
mod_open_dataset_server Man page Source code
mod_open_dataset_ui Man page Source code
mod_open_demoDataset_server Man page Source code
mod_open_demoDataset_ui Man page Source code
mod_open_demo_dataset Man page
mod_query_metacell_server Man page Source code
mod_query_metacell_ui Man page Source code
mod_settings_server Man page Source code
mod_settings_ui Man page Source code
mod_tracker_server Man page Source code
mod_tracker_ui Man page Source code
mvImage Man page Source code
my_hc_ExportMenu Man page Source code
my_hc_chart Man page Source code
nEmptyLines Man page Source code
n_assays_in_qf Man page Source code
names_metacell,QFeatures-method Man page
names_metacell,SummarizedExperiment-method Man page
names_metacell<- Man page
nonzero Man page Source code
params,QFeatures-method Man page
params,SummarizedExperiment-method Man page
params<- Man page
parentProtId,QFeatures-method Man page
parentProtId,SummarizedExperiment-method Man page
parentProtId<- Man page
pepa.test Man page Source code
pipeline-protein Man page
pkgs.require Man page Source code
plotJitter Man page Source code
plotJitter_rCharts Man page Source code
qMetacell,QFeatures-method Man page
qMetacell,SummarizedExperiment-method Man page
qMetacell-filter Man page
qMetacell<- Man page
qMetacellFilteringScope Man page Source code
qMetacellOnConditions Man page Source code
qMetacellWholeLine Man page Source code
qMetacellWholeMatrix Man page Source code
q_metacell Man page
query-metacell Man page
query_qMetacell Man page
samLRT Man page Source code
search.metacell.tags Man page Source code
server Source code Source code Source code Source code
sharedPeptides Man page Source code
shinyInput Source code
shinyOutput Source code
shinyValue Source code
specPeptides Man page Source code
splitAdjacencyMat Man page Source code
subAdjMat_sharedPeptides Man page Source code
subAdjMat_specificPeptides Man page Source code
subAdjMat_topnPeptides Man page Source code
test.design Man page Source code
topnFunctions Man page Source code
topnPeptides Man page Source code
tracking Man page
typeDataset,QFeatures-method Man page
typeDataset,SummarizedExperiment-method Man page
typeDataset<- Man page
version,QFeatures-method Man page
version<- Man page
wrapper.mvImage Man page Source code
write2excel,QFeatures-method Man page
write2excel,SummarizedExperiment-method Man page
samWieczorek/DAPAR2 documentation built on Oct. 15, 2023, 1:45 p.m.