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waldronlab
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MultiAssayExperiment
Bioconductor package for management of multi-assay data
https://waldronlab.io/MultiAssayExperiment/
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Please document how to add an experiment to an empty MultiAssayExperiment object
#274
charles-plessy
closed
4 years ago
5
Improvements to getWithColData
#273
LTLA
closed
4 years ago
1
getWithColData doesn't handle 1:many mappings
#272
LTLA
closed
4 years ago
3
colData<- and sampleMap<- validity
#271
vobencha
closed
4 years ago
4
mcols on ExperimentList not propagated to MAE
#270
vobencha
closed
4 years ago
3
Potential for upsetSamples mislabeling
#269
jonocarroll
closed
4 years ago
2
Warnings when creating empty objects
#268
lgatto
closed
4 years ago
3
Constructing `MatchedAssayExperiment` from `ExperimentList`
#267
cvanderaa
closed
4 years ago
3
How to control which SE assay to consider?
#266
lgatto
closed
4 years ago
3
Issue with ExperimentList accessor
#265
lgatto
closed
4 years ago
4
more informative warning when dropping ExperimentList element columns
#263
lwaldron
closed
4 years ago
2
Default sampleMap in MultiAssayExperiment() fails with unnamed samples
#262
LTLA
closed
4 years ago
2
Include overview figure in package?
#261
mtmorgan
closed
4 years ago
0
complete.cases error possibly related to mapToList
#260
aljabadi
closed
4 years ago
2
mcols(experiments(x)) are dropped by .harmonize()
#259
lawremi
closed
5 years ago
2
nested experiments
#258
phaverty
closed
5 years ago
2
Error when concatenating a regular named list
#257
LiNk-NY
closed
5 years ago
1
subsetting behavior when an assay has no rownames
#256
lwaldron
closed
5 years ago
4
cheatsheet updates
#255
lwaldron
closed
5 years ago
1
add single bracket replace method `[<-`
#254
LiNk-NY
closed
5 years ago
0
add `[[<-` replacement method for a particular experiment
#253
LiNk-NY
closed
5 years ago
1
function to add colData to a particular experiment and extract
#252
LiNk-NY
closed
5 years ago
4
Single bracket subset with drop=FALSE returns invalid object
#251
p-smirnov
closed
6 years ago
3
Extending MAE
#250
p-smirnov
closed
5 years ago
4
mergeReplicates stoped working for SummarizedExperiment
#249
jonaszierer
closed
5 years ago
5
issues with `subsetByAssay`
#248
LiNk-NY
closed
6 years ago
1
?`ExperimentList-class` Details - Methods help is confusing
#247
lwaldron
closed
6 years ago
0
update ?MultiAssayExperiment-helpers for long/wideFormat
#246
lwaldron
closed
6 years ago
0
dim() function
#245
lwaldron
closed
5 years ago
6
Snippet-friendly editing of the Description field
#244
lwaldron
closed
6 years ago
1
"RPPAArrayNULL" in Available Data Types
#243
lwaldron
closed
6 years ago
1
Imports or Depends on S4Vectors
#242
DarioS
closed
6 years ago
1
wideFormat documentation is unclear
#241
DarioS
closed
6 years ago
5
Update cheatsheet
#240
lwaldron
closed
6 years ago
1
Store and extract records not involved in any assay
#239
jonocarroll
closed
6 years ago
11
Column class when using wideFormat on non-numeric data
#238
jonaszierer
closed
6 years ago
1
Bug when simultaneously subsetting samples and assays
#237
jonaszierer
closed
6 years ago
2
wideFormat Code Optimisation
#236
DarioS
closed
6 years ago
5
wideFormat Option To Use Sample Names as Row Names
#235
DarioS
closed
6 years ago
2
Omics Columns Without colData Dropped
#234
DarioS
closed
6 years ago
1
wideFormat Variable Identifiability
#233
DarioS
closed
6 years ago
19
Experiment Can Be A Data Frame
#232
DarioS
closed
6 years ago
3
Vjcitn patch 1
#231
vjcitn
closed
6 years ago
0
combining MAE colData and SummarizedExperiment colData
#230
jonaszierer
closed
6 years ago
6
wideFormat() expands all columns if any assay contains a duplicate
#229
lwaldron
closed
6 years ago
3
Using intersectRows when different names are used for the same entity
#228
llrs
opened
6 years ago
8
Row Name Requirements Unclear
#227
DarioS
closed
6 years ago
0
Iterating Over Datasets Fails if Biobase Loaded
#226
DarioS
closed
6 years ago
1
ExperimentList Constructor Felxibility
#225
DarioS
closed
6 years ago
1
inappropriate package installation in vignettes
#224
mtmorgan
closed
6 years ago
4
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