Pagoda2 Versions Save

R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets

v1.0.2

3 years ago
  • Revised vignettes figures for the HTML tutorial. Figure sizes modified to be more uniform.

Version published on CRAN, 4 March 2021: https://cran.r-project.org/web/packages/pagoda2/index.html

v1.0.1

3 years ago

Added

  • Returned copy constructor

Changed

  • Fixed read10xMatrix() function
  • Updated Dockerfile
  • Fixed 'batch' param in Pagoda2 constructor

Version 1.0.1 published on CRAN on Feb 23 2021, https://cran.r-project.org/web/packages/pagoda2/index.html

v1.0.0

3 years ago

Pagoda2 is now on CRAN, and all binaries are built: https://cran.r-project.org/web/packages/pagoda2/index.html

  • The classes Pagoda2() and p2ViewPagodaApp() are now R6 classes; note pagoda2WebApp() is still a reference class as it depends on Rook
  • Vignettes revised
  • Use p2data and drat to install PBMC data for pagoda2 vignettes and examples. This was largely due to the size of the data and CRAN rules. Refer to https://github.com/kharchenkolab/p2data & https://github.com/kharchenkolab/drat
  • revise message() spacing for verbose statements
  • various changes for CRAN, e.g. par(), removing calls to installed.packages(), etc.
  • p2app4conos() moved to conos
  • more detailed roxygen2 docs

v0.1.4

3 years ago
  • added p2app4conos() for rendering Conos to pagoda2 application
  • README edits
  • vignettes edits

v0.1.3

3 years ago
  • Makefile.win, Makevars.win
  • Made OpenMP headers conditional
  • Now should (natively) install on Mac OS for all users

v0.1.2

3 years ago

Changed -- vignettes revisions -- install pagoda2 in one go via biocViews -- log10 scaling for plots -- windows installation -- updates for CRAN -- DESCRIPTION edits