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Visualize clonal expansion via circle-packing. 'APackOfTheClones' extends 'scRepertoire' to produce a publication-ready visualization of clonal expansion at a single cell resolution, by representing expanded clones as differently sized circles.

Home Page: https://qile0317.github.io/APackOfTheClones/

License: Other

R 86.29% C++ 13.71%
clonal-analysis single-cell single-cell-genomics r seurat immune-repertoire immune-system scrna-seq scrnaseq

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apackoftheclones's Issues

Release APackOfTheClones 0.1.2

First release:

Prepare for release:

  • git pull
  • urlchecker::url_check()
  • devtools::check(remote = TRUE, manual = TRUE)
  • devtools::check_win_devel()
  • rhub::check_for_cran()
  • rhub::check(platform = 'ubuntu-rchk')
  • rhub::check_with_sanitizers()
  • git push

Submit to CRAN:

  • usethis::use_version('patch')
  • devtools::submit_cran()
  • Approve email

Wait for CRAN...

  • Accepted ๐ŸŽ‰
  • git push
  • usethis::use_github_release()
  • usethis::use_dev_version()
  • git push

Release APackOfTheClones 0.1.3

Prepare for release:

  • git pull
  • Check current CRAN check results
  • Polish NEWS
  • urlchecker::url_check()
  • devtools::check(remote = TRUE, manual = TRUE)
  • #3
  • rhub::check_for_cran()
  • rhub::check(platform = 'ubuntu-rchk')
  • rhub::check_with_sanitizers()
  • revdepcheck::revdep_check(num_workers = 4)
  • Update cran-comments.md
  • git push

Submit to CRAN:

  • usethis::use_version('patch')
  • devtools::submit_cran()
  • Approve email

Wait for CRAN...

  • Accepted ๐ŸŽ‰
  • git push
  • usethis::use_github_release()
  • usethis::use_dev_version()
  • git push

`devtools::check_win_devel()`

NOTES:

  • checking package subdirectories ... NOTE
    Problems with news in 'NEWS.md':
    Cannot extract version info from the following section titles:
    APackOfTheClones
  • checking examples ... [12s] NOTE
    Examples with CPU (user + system) or elapsed time > 5s
    user system elapsed
    clonal_expansion_plot 7.12 0.62 7.97
  • checking for non-standard things in the check directory ... NOTE
    Found the following files/directories:
    ''NULL''
  • checking for detritus in the temp directory ... NOTE
    Found the following files/directories:
    'lastMiKTeXException'

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