Investigation of Fragmentation Conditions in Top-Down Proteomics


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Documentation for package ‘topdownr’ version 1.27.0

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topdownr-package Investigation of Fragmentation Conditions in Top-Down Proteomics
$-method The AbstractTopDownSet class
$<--method The AbstractTopDownSet class
AbstractTopDownSet-class The AbstractTopDownSet class
aggregate-method The TopDownSet class
assayData-method The AbstractTopDownSet class
bestConditions The NCBSet class
bestConditions-method The NCBSet class
coerce-method The FragmentViews class
coerce-method The TopDownSet class
colData The AbstractTopDownSet class
colData-method The AbstractTopDownSet class
colData<- The AbstractTopDownSet class
colData<--method The AbstractTopDownSet class
combine The AbstractTopDownSet class
combine-method The AbstractTopDownSet class
combine-method The FragmentViews class
combine-method The TopDownSet class
conditionData The AbstractTopDownSet class
conditionData-method The AbstractTopDownSet class
conditionData<- The AbstractTopDownSet class
conditionData<--method The AbstractTopDownSet class
conditionNames The AbstractTopDownSet class
conditionNames-method The AbstractTopDownSet class
createExperimentsFragmentOptimisation Create fragment optimisation experiment
createTngFusionMethFiles Windows specific functions.
dim-method The AbstractTopDownSet class
dimnames-method The AbstractTopDownSet class
expandMs1Conditions Expand MS Conditions
expandTms2Conditions Expand MS Conditions
filterCv The TopDownSet class
filterCv-method The TopDownSet class
filterInjectionTime The TopDownSet class
filterInjectionTime-method The TopDownSet class
filterIntensity The TopDownSet class
filterIntensity-method The TopDownSet class
filterNonReplicatedFragments The TopDownSet class
filterNonReplicatedFragments-method The TopDownSet class
fragmentationMap The NCBSet class
fragmentationMap-method The NCBSet class
FragmentViews The FragmentViews class
FragmentViews-class The FragmentViews class
mz-method The FragmentViews class
NCBSet-class The NCBSet class
normalize-method The TopDownSet class
plot-method The TopDownSet class
readTopDownFiles Read top-down files.
removeEmptyConditions The AbstractTopDownSet class
removeEmptyConditions-method The AbstractTopDownSet class
rowViews The AbstractTopDownSet class
rowViews-method The AbstractTopDownSet class
runScanHeadsman Windows specific functions.
runXmlMethodChanger Windows specific functions.
show-method The AbstractTopDownSet class
show-method The FragmentViews class
show-method The NCBSet class
show-method The TopDownSet class
summary-method The AbstractTopDownSet class
summary-method The NCBSet class
summary-method The TopDownSet class
tds TopDownSet Example Data
topdownr Investigation of Fragmentation Conditions in Top-Down Proteomics
topdownr-deprecated Deprecated functions in topdownr
TopDownSet-class The TopDownSet class
updateConditionNames The AbstractTopDownSet class
updateConditionNames-method The AbstractTopDownSet class
updateMedianInjectionTime The AbstractTopDownSet class
updateMedianInjectionTime-method The AbstractTopDownSet class
validMs1Settings List valid MS settings.
validTms2Settings List valid MS settings.
writeMethodXmls Create Orbitrap Fusion Lumos method.xml files.
[-method The AbstractTopDownSet class
[[-method The AbstractTopDownSet class
[[<--method The AbstractTopDownSet class