rformassspectrometry / QFeatures

Quantitative features for mass spectrometry data

https://RforMassSpectrometry.github.io/QFeatures/

rformassspectrometry/QFeatures Issues

`runCol` argument in `readQFeatures()`
Updated 2 months ago1
Feature request: aggregate by sample (i.e. column)
Updated 4 months ago4
add a function to average columns of a SummarizedExperiment
Updated 4 months ago9
QFeatures API
Updated 4 months ago2
readQFeatures no longer supports reading from a .txt file
Updated 4 months ago6
Rethinking `colData` management when adding or extracting sets
Updated 5 months ago2
Streamline assay joining with `joinAssays()`
Updated 5 months ago
Create vignette for `readQFeatures()` and co
Updated 5 months ago
Issue with local filtering variables and values
Closed 5 months ago1
Improve addAssayLink() documentation
Updated 5 months ago
Tabular data input
Closed 5 months ago10
.formatMtraqReportData() improvements
Updated 5 months ago
Aggregation by a atomic vector (not a list)
Closed 6 months ago
Rethink assays nomenclature
Closed 6 months ago5
accessor for "sets/experiments" for easier piping
Updated 9 months ago7
longFormat for SE with rowvars
Updated 9 months ago1
All QFeatures functions should add assays?
Updated a year ago4
feature request: remove empty assays
Closed a year ago6
Improve sweep for multiple assays?
Updated a year ago
Feature: automatic identification/labelling of contaminant peptides
Updated a year ago
Consistent use of 'pNA'
Closed a year ago4
Refactor: QFeatures subsetting
Updated a year ago1
using filterFeatures on selected assays
Closed a year ago1
"Mutate"/assign/create new assays
Closed 2 years ago4
feature request: conditional filtering of missing values
Updated 2 years ago8
Improve processing steps: logTransform, scaleTransform, normalize, sweep, impute (and aggregateFeatures?)
Closed 2 years ago
filterFeatures error
Closed 2 years ago
Bug in nNA()
Updated 2 years ago
feature request: filterNA() by column/sample
Updated 2 years ago1
Feature request: implement a `c()` method
Closed 2 years ago2
filterFeatures() to check existence of rowData variables
Closed 2 years ago2
Switch back to devel docker
Closed 2 years ago1
Assays: matrix and/or Matrix
Closed 2 years ago6
feat: support an HDF5 backend for on-disk memory
Updated 2 years ago1
colData is not updated in SE objects when aggregating across levels
Closed 2 years ago2
Feature request: updateFvarLabels and updateSampleNames
Closed 2 years ago2
Feature request: improve missing data handling
Updated 2 years ago
Add new assay to a `QFeatures` object when calling `impute()`
Closed 2 years ago2
Create QFeatures object from any sets of features/peptides/proteins tables
Updated 2 years ago
@hits contains links that point to missing features
Closed 2 years ago5
Enforcing adjacency matrix validity
Updated 3 years ago
Agregation failed with adjMat containing empty columns (proteins)
Closed 3 years ago3
Agregation with adjacency matrix of shared peptides
Closed 3 years ago2
Add an adjacencyMatrix setter
Closed 3 years ago1
Address message about possible inefficient code
Updated 3 years ago
feat: QFeatures needs to implement an `updateObject()` method
Closed 3 years ago4
Deprecation warnings
Closed 3 years ago2
Feature request: include functionality for spike-ins
Updated 3 years ago
QFeatures visualisation vignette
Closed 3 years ago2
@hits contains links that point to missing features
Closed 3 years ago4