# S4 classes for QTL summary statistics and metadata

## Documentation for package ‘QTLExperiment’ version 1.0.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

.mashData_2_qtle | Coercing mash data objects into QTLe objects
.mashFit_2_qtle | Coercing mash data objects into QTLe objects
betas | Named assay getters and setters
betas-method | Named assay getters and setters
betas<- | Named assay getters and setters
betas<--method | Named assay getters and setters
cbind-method | Combining QTLExperiment objects
coerce-method | An S4 class to represent QTL summary statistics.
colData-method | Internal QTLExperiment functions
errors | Named assay getters and setters
errors-method | Named assay getters and setters
errors<- | Named assay getters and setters
errors<--method | Named assay getters and setters
feature_id | Named rowData getters and setters
feature_id-method | Named rowData getters and setters
feature_id<- | Named rowData getters and setters
feature_id<--method | Named rowData getters and setters
int_colData | Internal QTLExperiment functions
int_colData-method | Internal QTLExperiment functions
int_colData<- | Internal QTLExperiment functions
int_colData<--method | Internal QTLExperiment functions
int_metadata | Internal QTLExperiment functions
int_metadata-method | Internal QTLExperiment functions
int_metadata<- | Internal QTLExperiment functions
int_metadata<--method | Internal QTLExperiment functions
int_rowData | Internal QTLExperiment functions
int_rowData-method | Internal QTLExperiment functions
int_rowData<- | Internal QTLExperiment functions
int_rowData<--method | Internal QTLExperiment functions
lfsrs | Named assay getters and setters
lfsrs-method | Named assay getters and setters
lfsrs<- | Named assay getters and setters
lfsrs<--method | Named assay getters and setters
mainExpName | Return the name of a QTLExperiment object.
mainExpName-method | Return the name of a QTLExperiment object.
mainExpName<- | Return the name of a QTLExperiment object.
mainExpName<--method | Return the name of a QTLExperiment object.
mash2qtle | Coercing mash data objects into QTLe objects
mockMASHR | Mock data for the QTLExperiment object
mockMASHR_FIT | Mock data for the QTLExperiment object
mockQTLE | Mock data for the QTLExperiment object
mockSummaryStats | Mock data for the QTLExperiment object
objectVersion | Return the version of a QTLExperiment object
objectVersion-method | Return the version of a QTLExperiment object
parallel_slot_names-method | Internal QTLExperiment functions
pvalues | Named assay getters and setters
pvalues-method | Named assay getters and setters
pvalues<- | Named assay getters and setters
pvalues<--method | Named assay getters and setters
qtle-assays | Named assay getters and setters
QTLe-coerce | Coercing mash data objects into QTLe objects
qtle-col_ids | Named colData getters and setters
QTLe-combine | Combining QTLExperiment objects
QTLe-internals | Internal QTLExperiment functions
QTLe-name | Return the name of a QTLExperiment object.
QTLe-recover | Recover QTLExperiment IDs
qtle-row_ids | Named rowData getters and setters
QTLe-subset | Subsetting and replacing data in QTLExperiment objects
QTLe-version | Return the version of a QTLExperiment object
QTLExperiment | An S4 class to represent QTL summary statistics.
QTLExperiment-class | An S4 class to represent QTL summary statistics.
rbind-method | Combining QTLExperiment objects
recover_qtle_ids | Recover QTLExperiment IDs
rowData-method | Internal QTLExperiment functions
state_id | Named colData getters and setters
state_id-method | Named colData getters and setters
state_id<- | Named colData getters and setters
state_id<--method | Named colData getters and setters
sumstats2qtle | Coerce QTL summary statistics into a QTLExperiment object
updateObject | Update a QTLExperiment object
updateObject-method | Update a QTLExperiment object
variant_id | Named rowData getters and setters
variant_id-method | Named rowData getters and setters
variant_id<- | Named rowData getters and setters
variant_id<--method | Named rowData getters and setters
[-method | Subsetting and replacing data in QTLExperiment objects
[<--method | Subsetting and replacing data in QTLExperiment objects