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ddsjoberg/gtsummary 565

Presentation-Ready Data Summary and Analytic Result Tables

AxelitoMartin/gnomeR 14

Package to wrangle and visualize genomic data in R

ddsjoberg/bstfun 7

Miscellaneous collection of functions

karissawhiting/cbioportalR 3

R package to wrap cBioPortal's API to pull data from public or private cBioPortal databases

ecohealthalliance/tater 2

Manual annotation interface

ecohealthalliance/amr-db 1

AMR emergence events data cleaning and compilation

karissawhiting/book-club 0

Supporting materials for stats/coding book-club

pull request commentddsjoberg/gtsummary

Adding continuous tabulating function

@ddsjoberg This feature is really useful. I'm looking forward to using it!

An initial thought about the statistic argument:

I was thinking it would be useful to accept a list of formulas and allow different continuous statistic types for different comparison variables.

E.g.

tbl_continuous(
  data = trial,
  variable = age,
  statistic =  list(grade ~ "{mean}", 
                    trt ~ "{median}"),
  include = c(trt, grade)
)

However, using it this way is a llittle inconsistent with left side variable ~ right side statistic relationship in tbl_summary(), so that could potentially be confusing?

Conversely, you could acheive the same result this way:

x <- tbl_continuous(
  data = trial,
  variable = age,
  statistic =  "{mean}",
  include = c(grade)
)

y <- tbl_continuous(
  data = trial,
  variable = age,
  statistic =  "{median}",
  include = c(trt)
)

tbl_stack(list(x, y))

But it's a bit more cumbersome and the footnote needs adjustment.

Thoughts on this?

ddsjoberg

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Daniel Sjoberg

commit sha 1130649136528a3828a8ab7c2a66064518270f5e

Adding SMD to `add_difference()` (#970) * adding SMD to add_difference * upadtes * updates * Update utils-add_p_tests.R * Update utils-add_p_tests.R * updates * using smd package * Update test-add_difference.R * added weighted SMD * removed add_dff weight arg * increment version number

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karissawhiting

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Merge branch 'master' into continuous_cross

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Daniel Sjoberg

commit sha 7a279d109022b5375c0b400ed4564748114cd209

N_obs_unweighted now support for continuous variables (#587) * bug fix #585 * Update utils-tbl_summary.R * Update add_n.R * add unit test for continuous N unweighted in tbl_svysummary * update NEWS * update DESCRIPTION * codemeta.json Co-authored-by: whitingk <whitingk@mskcc.org>

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Daniel Sjoberg

commit sha 263fd023790ea0a67f28d9ef76929b5333ae7071

Add nevent messaging (#601) * bug fix #585 * Update utils-tbl_summary.R * Update add_n.R * adding messaging for add_nevent.tbl_regression

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Daniel Sjoberg

commit sha 72084a3dffa0a7113aa88763c926691182308ff7

More careful handling of evaluation of RHS of formulas throughout package (#599) * added eval_rhs * replaced rlang::f_rhs() with eval_rhs() * Update test-tbl_summary.R * Increment version number * codemeta Co-authored-by: whitingk <whitingk@mskcc.org>

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ddsjoberg

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Update _pkgdown.yml

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commit sha cc7751177a73a4d9f23af3ffe031818019fd20cc

in progress

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Daniel Sjoberg

commit sha 13aa2a668cbc131a73b44400a950c4c5292d60a5

Misc updates (#605) * updated license * printing supportive messages when package is loaded * simplified mark codes to only appear in style_number() * Update LICENSE.md * Update style_number.R * Update style_number.R * Update pkgdown.yaml * Update pkgdown.yaml

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Daniel Sjoberg

commit sha 63acf1b5b3a1e6803d065268c3a5225a62901d19

Merge branch 'master' into tbl_regression_transformation

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Daniel Sjoberg

commit sha 2834254c42052ac65c03f168d41ee09c08fd5a95

Add language (#611) * added chinese * doc update * Update gtsummary_translated.xlsx * added hindi * Update theme_gtsummary.Rd * updates * moved default location * added lancet * Increment version number * updating news for release

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Daniel Sjoberg

commit sha d19adfc9e9a01dbf5ea90e01e223700aa0065c0a

Merge branch 'master' into tbl_regression_transformation

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Daniel D. Sjoberg

commit sha 713c44ea74d795069b9cf91f0bc75c8931d2e76c

Update pkgdown.yaml

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Daniel Sjoberg

commit sha 7616184f9618bde674c358d7abbd1ac55f799d25

Merge branch 'master' into tbl_regression_transformation

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Daniel Sjoberg

commit sha fd3baad49fa27d319844ca802447a82d226aca68

Update tbl_survfit.R (#610) * Update tbl_survfit.R * #608 fix * Update tbl_survfit.R * Update tbl_survfit.R * Update pull_request_template.md * fixing warning about multiple startifying variables * bug fix when variable levels contain an equal sign * adding unit test * Increment version number

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Daniel Sjoberg

commit sha 2c9060e2502a44bef6331ec103c4f01a5c21da04

Prepping v1.3.3 (#615) * Update R-CMD-check.yaml * fixing links * update * Update R-CMD-check.yaml * Update R-CMD-check.yaml * Update R-CMD-check.yaml * Update R-CMD-check.yaml * Update R-CMD-check.yaml * Update R-CMD-check.yaml * Update cran-comments.md * Update zzz.R * Update add_nevent.R * tidying up * updated gt images * Update DESCRIPTION * Update gtsummary-package.R * increment version number * documentation updates

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Daniel D. Sjoberg

commit sha 0f1defb04c3a40a3a521989c2fe2a35b4f6c26ef

Update NEWS.md

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Daniel D. Sjoberg

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Increment version number

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Daniel Sjoberg

commit sha b47e2fbee831dcdfe5c15c3d653db98ee990d6ae

Merge branch 'master' into tbl_regression_transformation

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Daniel Sjoberg

commit sha a2c48e89e068dd4c28927221ffee0b402a1a3115

#624 fix for NULL margin arg (#629) * #624 fix for NULL margin arg * updating to remove en dash from as default argument in tbl_survfit() * update tbl_cross docs and add test * Update version * codemeta Co-authored-by: whitingk <whitingk@mskcc.org>

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Daniel Sjoberg

commit sha 6019783bec21ab0b178e63ef6cc2bbf2f090627c

Preparing for v1.3.4 release (#633) * Create where.R * ran README * Update NEWS.md * Update NEWS.md * Update where.R * Update where.R * Increment version number * Update codemeta.json * Update WORDLIST * fixed broom link

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ddsjoberg

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Increment version number

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Daniel Sjoberg

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Merge branch 'master' into tbl_regression_transformation

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whitingk

commit sha e224ca01560735215bb306e275c458ecebb9c4f8

updates

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pull request commentddsjoberg/bstfun

Adding `create_biostat_project()` and templates

@ddsjoberg do you know the best way to add an empty folder to a project template?

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whitingk

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small edits to biostats template and add whitingk

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