-
Notifications
You must be signed in to change notification settings - Fork 34
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
Merge dev branch into master branch
- Loading branch information
Showing
184 changed files
with
10,479 additions
and
1,856,893 deletions.
There are no files selected for viewing
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -1,13 +1,14 @@ | ||
^Meta$ | ||
^doc$ | ||
^CRAN-RELEASE$ | ||
^.*\.Rproj$ | ||
^\.Rproj\.user$ | ||
^\.travis\.yml$ | ||
^cran-comments\.md$ | ||
^LICENSE\.md$ | ||
^_pkgdown\.yml$ | ||
^docs$ | ||
^pkgdown$ | ||
^\.github$ | ||
^README\.Rmd$ | ||
^README-.*\.png$ | ||
^CODE_OF_CONDUCT.md$ | ||
^CONTRIBUTING.MD$ | ||
^packrat/ | ||
^\.Rprofile$ | ||
^figures$ | ||
^dabestr.Rmd$ | ||
^cran-comments\.md$ | ||
^revdep$ |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -0,0 +1 @@ | ||
*.html |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -0,0 +1,29 @@ | ||
# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples | ||
# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help | ||
on: | ||
push: | ||
branches: [dev, master] | ||
pull_request: | ||
branches: [dev, master] | ||
|
||
name: R-CMD-check | ||
|
||
jobs: | ||
R-CMD-check: | ||
runs-on: ubuntu-latest | ||
env: | ||
GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | ||
R_KEEP_PKG_SOURCE: yes | ||
steps: | ||
- uses: actions/checkout@v3 | ||
|
||
- uses: r-lib/actions/setup-r@v2 | ||
with: | ||
use-public-rspm: true | ||
|
||
- uses: r-lib/actions/setup-r-dependencies@v2 | ||
with: | ||
extra-packages: any::rcmdcheck | ||
needs: check | ||
|
||
- uses: r-lib/actions/check-r-package@v2 |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -0,0 +1,48 @@ | ||
# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples | ||
# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help | ||
on: | ||
push: | ||
branches: [master] | ||
pull_request: | ||
branches: [master] | ||
release: | ||
types: [published] | ||
workflow_dispatch: | ||
|
||
name: pkgdown | ||
|
||
jobs: | ||
pkgdown: | ||
runs-on: ubuntu-latest | ||
# Only restrict concurrency for non-PR jobs | ||
concurrency: | ||
group: pkgdown-${{ github.event_name != 'pull_request' || github.run_id }} | ||
env: | ||
GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | ||
permissions: | ||
contents: write | ||
steps: | ||
- uses: actions/checkout@v3 | ||
|
||
- uses: r-lib/actions/setup-pandoc@v2 | ||
|
||
- uses: r-lib/actions/setup-r@v2 | ||
with: | ||
use-public-rspm: true | ||
|
||
- uses: r-lib/actions/setup-r-dependencies@v2 | ||
with: | ||
extra-packages: any::pkgdown, local::. | ||
needs: website | ||
|
||
- name: Build site | ||
run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE) | ||
shell: Rscript {0} | ||
|
||
- name: Deploy to GitHub pages 🚀 | ||
if: github.event_name != 'pull_request' | ||
uses: JamesIves/github-pages-deploy-action@v4.4.1 | ||
with: | ||
clean: false | ||
branch: gh-pages | ||
folder: docs |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -1,16 +1,17 @@ | ||
Meta | ||
doc | ||
# Byte-compiled / optimized / DLL files | ||
|
||
# Testing Files | ||
dabestr.Rmd | ||
|
||
# Mac | ||
**/.DS_Store | ||
|
||
# RProj | ||
.Rproj.user | ||
.Rhistory | ||
.RData | ||
.Rhistory | ||
.Ruserdata | ||
.Rprofile | ||
.DS_Store | ||
*.DS_Store | ||
.RProfile | ||
docs | ||
inst/doc | ||
# revdevcheck temp folder | ||
revdep | ||
# test figures | ||
tests/testthat/Rplots.pdf | ||
packrat/lib*/ | ||
packrat/src/ | ||
figures |
This file was deleted.
Oops, something went wrong.
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -1,60 +1,72 @@ | ||
Package: dabestr | ||
Type: Package | ||
Title: Data Analysis using Bootstrap-Coupled Estimation | ||
Version: 0.3.0 | ||
Version: 2023.9.12 | ||
Authors@R: c( | ||
person("Joses W.", "Ho", | ||
email = "joseshowh@gmail.com", role = c("cre", "aut")), | ||
person("Tayfun", "Tumkaya", | ||
role = c("aut")) | ||
) | ||
Maintainer: Joses W. Ho <joseshowh@gmail.com> | ||
person("Yishan", "Mai", email = "maiyishan@u.duke.nus.edu", role = c("cre", "ctb"), | ||
comment = c(ORCID = "0000-0002-7199-380X")), | ||
person("Kah Seng", "Lian", email = "kahseng@u.nus.edu", role = c("aut")), | ||
person("Zhuoyu", "Wang", email = "wzhuoyu21@u.nus,edu", role = "aut"), | ||
person("Jun Yang", "Liao", email = "name@example.com", role = "aut"), | ||
person("Joses W.", "Ho", email = "joseshowh@gmail.com", role = "aut", | ||
comment = c(ORCID = "0000-0002-9186-6322")), | ||
person("Tayfun", "Tumkaya", role = "aut", | ||
comment = c(ORCID = "0000-0001-8425-3360")), | ||
person("Felicia", "Low", role = "aut", email = "lowminhuifelicia@gmail.com"), | ||
person("Adam", "Claridge-Chang", role = "ctb", | ||
comment = c(ORCID = "0000-0002-4583-3650")), | ||
person("Hyungwon", "Choi", role = "ctb", | ||
comment = c(ORCID = "0000-0002-6687-3088")), | ||
person("Sangyu", "Xu", role = "ctb", | ||
comment = c(ORCID = "0000-0002-4927-9204")), | ||
person("ACCLAB", role = c("cph", "fnd"))) | ||
Description: Data Analysis using Bootstrap-Coupled ESTimation. | ||
Estimation statistics is a simple framework that avoids the pitfalls of | ||
significance testing. It uses familiar statistical concepts: means, | ||
mean differences, and error bars. More importantly, it focuses on the | ||
effect size of one's experiment/intervention, as opposed to a false | ||
dichotomy engendered by P values. | ||
An estimation plot has two key features: | ||
1. It presents all datapoints as a swarmplot, which orders each point to | ||
display the underlying distribution. | ||
2. It presents the effect size as a bootstrap 95% confidence interval on a | ||
separate but aligned axes. | ||
Estimation plots are introduced in Ho et al., Nature Methods 2019, 1548-7105. | ||
<doi:10.1038/s41592-019-0470-3>. | ||
The free-to-view PDF is located at <https://rdcu.be/bHhJ4>. | ||
License: file LICENSE | ||
URL: https://github.com/ACCLAB/dabestr | ||
BugReports: https://github.com/ACCLAB/dabestr/issues | ||
Estimation statistics is a simple framework that avoids the pitfalls of | ||
significance testing. It uses familiar statistical concepts: means, | ||
mean differences, and error bars. More importantly, it focuses on the | ||
effect size of one's experiment/intervention, as opposed to a false | ||
dichotomy engendered by P values. | ||
An estimation plot has two key features: | ||
1. It presents all datapoints as a swarmplot, which orders each point to | ||
display the underlying distribution. | ||
2. It presents the effect size as a bootstrap 95% confidence interval on a | ||
separate but aligned axes. | ||
Estimation plots are introduced in Ho et al., Nature Methods 2019, 1548-7105. | ||
<doi:10.1038/s41592-019-0470-3>. | ||
The free-to-view PDF is located at <https://www.nature.com/articles/s41592-019-0470-3.epdf?author_access_token=Euy6APITxsYA3huBKOFBvNRgN0jAjWel9jnR3ZoTv0Pr6zJiJ3AA5aH4989gOJS_dajtNr1Wt17D0fh-t4GFcvqwMYN03qb8C33na_UrCUcGrt-Z0J9aPL6TPSbOxIC-pbHWKUDo2XsUOr3hQmlRew%3D%3D>. | ||
License: Apache License (>= 2) | ||
Encoding: UTF-8 | ||
LazyData: true | ||
URL: https://github.com/ACCLAB/dabestr, | ||
https://acclab.github.io/dabestr/ | ||
Depends: | ||
R (>= 3.5.0), | ||
magrittr, | ||
stats, | ||
utils | ||
Imports: | ||
boot, | ||
cowplot, | ||
dplyr, | ||
effsize, | ||
ellipsis, | ||
ggplot2 (>= 3.2), | ||
forcats, | ||
ggforce, | ||
ggbeeswarm, | ||
plyr, | ||
RColorBrewer, | ||
rlang, | ||
simpleboot, | ||
stringr, | ||
tibble, | ||
tidyr, | ||
RoxygenNote: 7.1.0 | ||
Suggests: | ||
R (>= 2.10) | ||
Imports: | ||
ggplot2, | ||
cowplot, | ||
tidyr, | ||
dplyr, | ||
tibble, | ||
rlang, | ||
magrittr, | ||
ggbeeswarm, | ||
effsize, | ||
grid, | ||
scales, | ||
ggsci, | ||
cli, | ||
boot, | ||
stats, | ||
stringr, | ||
brunnermunzel, | ||
methods | ||
Roxygen: list(markdown = TRUE) | ||
RoxygenNote: 7.2.3 | ||
Suggests: | ||
testthat (>= 3.0.0), | ||
vdiffr, | ||
knitr, | ||
rmarkdown, | ||
tufte, | ||
testthat, | ||
vdiffr | ||
VignetteBuilder: knitr | ||
kableExtra | ||
Config/testthat/edition: 3 | ||
LazyData: true | ||
VignetteBuilder: knitr, kableExtra |
Oops, something went wrong.