PhilBoileau/scPCA issues and pull requests

#62 - How to extract features contributing most to the eigenvector of interest

Issue - State: closed - Opened by klai001 7 months ago - 1 comment

#61 - fix citation in n_centers

Pull Request - State: closed - Opened by PhilBoileau 10 months ago

#60 - Incorrect citation in docs

Issue - State: closed - Opened by PhilBoileau 10 months ago

#59 - scPCA errors on simulated data with N < M

Issue - State: open - Opened by adigorla about 1 year ago

#58 - remove BiocParallel tests for equality

Pull Request - State: closed - Opened by PhilBoileau about 3 years ago

#57 - Deferred matrix updates

Pull Request - State: closed - Opened by PhilBoileau almost 4 years ago

#56 - memory allocation problem

Issue - State: closed - Opened by chisin about 4 years ago - 5 comments

#55 - Reverse cPCA and scPCA

Issue - State: open - Opened by PietroD about 4 years ago - 5 comments
Labels: enhancement, not an issue

#54 - implement LTLA's suggestions for DelayedMatrix Support

Pull Request - State: closed - Opened by PhilBoileau about 4 years ago

#53 - Use MatrixGenerics in safeColScale Function

Issue - State: closed - Opened by PhilBoileau about 4 years ago - 1 comment
Labels: enhancement

#52 - DelayedMatrix support

Pull Request - State: closed - Opened by PhilBoileau about 4 years ago - 2 comments

#51 - Convergence issues

Pull Request - State: closed - Opened by PhilBoileau over 4 years ago - 1 comment

#50 - RSpectra::eigs_sym occasionally does not return the specified number of eigenvectors

Issue - State: closed - Opened by LTLA over 4 years ago - 2 comments

#49 - Speedup

Pull Request - State: closed - Opened by PhilBoileau over 4 years ago - 1 comment

#48 - Prior cluster

Pull Request - State: closed - Opened by PhilBoileau over 4 years ago

#47 - More flexible handling of clusters

Issue - State: closed - Opened by LTLA over 4 years ago - 1 comment

#46 - Update documentation

Pull Request - State: closed - Opened by PhilBoileau over 4 years ago

#45 - n_centers=1 yields a list instead of a matrix for x, rotation

Issue - State: closed - Opened by LTLA over 4 years ago - 9 comments

#44 - Increase speed and decrease memory usage of (s)cPCA on large datasets.

Issue - State: closed - Opened by PhilBoileau over 4 years ago - 5 comments

#43 - JOSS revision

Pull Request - State: closed - Opened by PhilBoileau over 4 years ago

#42 - JOSS: small scRNA-seq test dataset takes... quite a while.

Issue - State: closed - Opened by LTLA over 4 years ago

#41 - JOSS: practical generation of the background in scRNA-seq studies

Issue - State: closed - Opened by LTLA over 4 years ago

#40 - JOSS: natively handling alternative matrix representations

Issue - State: closed - Opened by LTLA over 4 years ago - 1 comment

#39 - JOSS: hidden package imports make it difficult to copy-paste vignette code

Issue - State: closed - Opened by LTLA over 4 years ago

#38 - JOSS: cut down on the package load chat

Issue - State: closed - Opened by LTLA over 4 years ago

#37 - Mention non-linear competing approached

Pull Request - State: closed - Opened by PhilBoileau almost 5 years ago

#36 - JOSS: "Do the authors describe how this software compares to other commonly-used packages?"

Issue - State: closed - Opened by fabian-s almost 5 years ago

#35 - language fixes

Pull Request - State: closed - Opened by fabian-s almost 5 years ago - 1 comment

#34 - Fixing tests and continuous integration

Pull Request - State: closed - Opened by nhejazi almost 5 years ago - 1 comment

#33 - Spca var proj

Pull Request - State: closed - Opened by PhilBoileau almost 5 years ago

#32 - Implement SPCA step in Rcpp

Issue - State: closed - Opened by PhilBoileau almost 5 years ago
Labels: enhancement

#31 - Joss paper

Pull Request - State: closed - Opened by PhilBoileau almost 5 years ago

#30 - Fix #28 and #29

Pull Request - State: closed - Opened by nhejazi almost 5 years ago - 1 comment

#29 - `cvSelectParams` overrides `n_medoids` argument

Issue - State: closed - Opened by nhejazi almost 5 years ago - 2 comments
Labels: bug

#28 - `scPCA` with `cv = n` randomly throws errors

Issue - State: closed - Opened by PhilBoileau almost 5 years ago - 1 comment
Labels: bug

#27 - Add hclust

Pull Request - State: closed - Opened by PhilBoileau almost 5 years ago

#26 - Post-BioC Acceptance Updates

Pull Request - State: closed - Opened by nhejazi about 5 years ago
Labels: enhancement

#25 - Testing parallelized function variants

Pull Request - State: closed - Opened by nhejazi about 5 years ago

#24 - CI fixes

Pull Request - State: closed - Opened by nhejazi about 5 years ago

#23 - continuous integration fixes

Pull Request - State: closed - Opened by nhejazi about 5 years ago - 1 comment

#22 - Cross-validation of contrastive and penalization parameters

Pull Request - State: closed - Opened by nhejazi about 5 years ago - 1 comment
Labels: enhancement

#21 - Vignette touch-ups

Pull Request - State: closed - Opened by nhejazi about 5 years ago - 1 comment

#20 - Vignette sce

Pull Request - State: closed - Opened by PhilBoileau about 5 years ago

#19 - Update sce example in vignette

Issue - State: closed - Opened by PhilBoileau about 5 years ago - 1 comment

#18 - Documentation and support site

Pull Request - State: closed - Opened by nhejazi about 5 years ago - 1 comment