Changes in version 1.9.1 (2022-01-19)                  

  - Updating copyright years
  - Updating citation information

                 Changes in version 1.7.3 (2021-10-07)                  

  - Removing more tests attempting to verify that parallelized outputs
    perfectly match their serial counterparts.

                 Changes in version 1.7.2 (2021-09-15)                  

  - Removing tests checking that sequential and parallel calls to
    scPCA() produce identical outputs when BiocParallel's SerialParam()
    is used. This due to new handing of random number generation in
    BiocParallel version 1.28.

                 Changes in version 1.5.3 (2021-03-14)                  

  - Updating plotting issue in vignette: comparison of cPCA and scPCA
    loadings.
  - Adding pkgdown site.
  - Moving ScaledMatrix to "imports" section of DESCRIPTION.

                 Changes in version 1.5.2 (2020-12-21)                  

  - Adding LTLA/ScaledMatrix to "Remotes" section of DESCRIPTION.

                 Changes in version 1.5.1 (2020-12-17)                  

  - scPCA() and other internal functions may now take advantage of the
    ScaledMatrix object class. This allows more computationally
    efficient contrastive covariance matrix estimation when analyzing
    large datasets.
  - safeColScale() now used MatrixGenerics to handle feature
    standardization.

                 Changes in version 1.3.10 (2020-10-16)                 

  - Implementing suggested improvements from Aaron Lun.

                 Changes in version 1.3.9 (2020-10-12)                  

  - scPCA() now accepts DelayedMatrix objects as target and background
    datasets.

                 Changes in version 1.3.8 (2020-09-01)                  

  - Minor bug fixes

                 Changes in version 1.3.6 (2020-08-30)                  

  - Fixed issue where n_centers was required when only one penalty and
    contrast term were provided
  - Users can now pass factors and character vectors to the clusters
    argument.

                 Changes in version 1.3.5 (2020-08-18)                  

  - Fixed citations in docs
  - Provided more detailed warning when RSpectra::eigs_sym() fails to
    converge
  - Included arguments in scPCA() to control RSpectra::eigs_sym()
    convergence: error tolerance and max number of iterations

                 Changes in version 1.3.4 (2020-08-12)                  

  - Replaced calls to base::eigen() by RSpectra::eigs_sym() to speed up
    eigendecompositions of contrastive covariance matrices. cPCA is now
    performed much more quickly when only wishing to compute a handful
    of leading contrastive principal components.
  - Replaced calls to stats::cov() by coop::covar() to speed up
    computation of large sample covariance matrices.
  - In future updates, we'd like to explore using the DelayedArray
    framework to support the analysis of larger datasets.

                 Changes in version 1.3.3 (2020-08-08)                  

  - The n_centers argument no longer matters when When the contrasts
    argument is of length 1 and the penalty term is set to 0.
  - Users can now pass in their own cluster labels

                 Changes in version 1.3.2 (2020-08-05)                  

  - Updated scPCA() function documentation
  - Corrected spelling mistakes

                 Changes in version 1.1.15 (2020-06-02)                 

  - Fixing Travis CI settings

                 Changes in version 1.1.14 (2020-04-26)                 

  - Fixing broken link in an internal function documentation page.

                 Changes in version 1.1.12 (2020-04-21)                 

  - Updated citations
  - Fixed typos in documentation

                 Changes in version 1.1.11 (2020-02-02)                 

  - Added more SPCA algorithm options
      - SPCA via variable projection
      - Randomized SPCA via variable projection
  - New vignette section comparing performance of SPCA algorithms
  - Improvements to code coverage

                 Changes in version 1.1.5 (2020-01-18)                  

  - Fixed issue with matrix normalization
  - Misc. bug fixes
  - Improvements to code coverage

                 Changes in version 1.1.2 (2020-01-08)                  

  - Added hierarchical clustering options for clustering based
    cross-validation

                 Changes in version 0.99.0 (2019-09-13)                 

  - Submitted to Bioconductor