Skip to content

Commit

Permalink
version 3.4.0
Browse files Browse the repository at this point in the history
  • Loading branch information
eheinzen authored and cran-robot committed Feb 15, 2020
1 parent 41fcc3a commit a1d1f66
Show file tree
Hide file tree
Showing 75 changed files with 1,931 additions and 787 deletions.
17 changes: 9 additions & 8 deletions DESCRIPTION
@@ -1,8 +1,8 @@
Package: arsenal
Title: An Arsenal of 'R' Functions for Large-Scale Statistical
Summaries
Version: 3.3.0
Date: 2019-09-06
Version: 3.4.0
Date: 2020-02-14
Authors@R: c(
person("Ethan", "Heinzen", email = "heinzen.ethan@mayo.edu", role = c("aut", "cre")),
person("Jason", "Sinnwell", role="aut"),
Expand All @@ -28,21 +28,22 @@ Description: An Arsenal of 'R' functions for large-scale statistical summaries,
freqlist(), a powerful frequency table across many categorical variables;
comparedf(), a function for comparing data.frames; and
write2(), a function to output tables to a document.
Suggests: broom, stringr, magrittr, knitr, rmarkdown, testthat, xtable,
Suggests: broom, stringr, magrittr, rmarkdown, testthat, xtable,
pander, survival (>= 2.41-3), coin, pROC, MASS, gam, rpart,
yaml
Depends: R (>= 3.2.0), stats (>= 3.2.0)
Imports: utils (>= 3.2.0)
Imports: knitr, utils (>= 3.2.0)
URL: https://github.com/eheinzen/arsenal,
https://cran.r-project.org/package=arsenal
https://cran.r-project.org/package=arsenal,
https://eheinzen.github.io/arsenal/
BugReports: https://github.com/eheinzen/arsenal/issues
VignetteBuilder: knitr
License: GPL (>= 2)
RoxygenNote: 6.1.1
RoxygenNote: 7.0.2
LazyData: true
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2019-09-06 18:59:52 UTC; m144326
Packaged: 2020-02-14 20:25:05 UTC; m144326
Author: Ethan Heinzen [aut, cre],
Jason Sinnwell [aut],
Elizabeth Atkinson [aut],
Expand All @@ -57,4 +58,4 @@ Author: Ethan Heinzen [aut, cre],
Maddie McCullough [art]
Maintainer: Ethan Heinzen <heinzen.ethan@mayo.edu>
Repository: CRAN
Date/Publication: 2019-09-07 08:20:02 UTC
Date/Publication: 2020-02-15 19:10:03 UTC
148 changes: 74 additions & 74 deletions MD5
@@ -1,21 +1,21 @@
98ba0c2ec0a443ff203d48ac8cc63a9f *DESCRIPTION
b948d868e28a14ca7e0c0109f3fe832c *NAMESPACE
ee238e49e4a1ee68b8216e1a5d6728d6 *NEWS.md
7619eeee4cc6833cbb94c4a74faeb752 *DESCRIPTION
1c08387aa4a55bc2eb257633cfbd704d *NAMESPACE
2aebd9babbe980ab94b364398235dbe7 *NEWS.md
fb039c28425d1b07e6d7860bf6d5a58b *R/arsenal.R
ae4cc563cec6903508dd14f27bdb6198 *R/arsenal_table.R
59d0400128715ca191a6f4ef69eb7fc4 *R/as.data.frame.freqlist.R
67b0cc40ee32e48643af62d70b59b5c1 *R/as.data.frame.modelsum.R
ec9777d58f7c3ed96fd74fafa087b2fb *R/as.data.frame.tableby.R
cf64d94a1c4cd1104df8884bdc11a9e5 *R/comparedf.R
e504af4f850d271d3377bb09ec7d552d *R/comparedf.control.R
9ef1d13a6661ff41b66b73b26fa717be *R/comparedf.internal.R
17aa65b6fc3dff909fb8a837625d81c5 *R/comparedf.control.R
0a14a04a4cb888084fc5cb2392bf2ece *R/comparedf.internal.R
f9f65a3c5586c48d03d87b10e13979e6 *R/comparedf.tolerances.R
fcf9ac38877e24e4c1fa3dc260998e7e *R/defunct.R
29ec82599966ed40f9019957353a72d3 *R/deprecated.R
f0a1429f4166c383330c680dc3f9362b *R/formulize.R
9dd1fee1d7b3e7fc4cb9de0ee601f0ae *R/formulize.R
8a7ac1f97afb907409c9afe7a90395b5 *R/freq.control.R
868e2db8e3d550cf6f57a2d1ac8dc946 *R/freqlist.R
0829e6da7b17d95fbc078b02868179df *R/freqlist.internal.R
d45106b4e9384f73b902a7a517936643 *R/freqlist.internal.R
895544279837a3c45e5513998bc7a574 *R/internal.functions.R
8288971c4eef779b835ffd7eaa8042b0 *R/keep.labels.R
4f817aba0c6b02ee0eee33dec51690a4 *R/labels.R
Expand All @@ -25,112 +25,112 @@ f3bc182ae0dcd827a0d3d3e191db4828 *R/mdy.Date.R
70145db263086b83447fce01e729f7eb *R/modelsum.R
35610d4ec74b29a1f87c7d5471bc372f *R/modelsum.control.R
f185db7745b08bf5fede8713b58c8f2f *R/modelsum.families.R
bb3ece04193af00cfff5f8aedfc08980 *R/modelsum.internal.R
5ca177d2e3a4bcae52289b30724534f7 *R/modelsum.internal.R
d280d3f55b975402d897e7d03047b59d *R/na.operations.R
32afc0521f2bce43ba355a3caf7b9730 *R/not.in.R
e2458db48a5f1c367d36bf8cd890c549 *R/padjust.R
6e1276c2b1a2ef040a678db7fdf40d8b *R/paired.R
59996af3a3c8621981189df8133ce2c7 *R/paired.R
2f599abb94e552e242d5024992e6dde8 *R/paired.control.R
20ece227c49dc16e0dadcbbca96500cf *R/paired.internal.R
1692e0bf1e6245bdcdd255f3e2d7e8a0 *R/paired.internal.R
478c34566a5036fa736f0b97cf40f58e *R/paired.stat.tests.R
e1427edd79dc20bae932449d90fb5161 *R/release_questions.R
61d3d00697e72fe4067cb2b3eb8683af *R/summary.comparedf.R
a9b398c9003e293c1e8f6c308c8f8fed *R/summary.freqlist.R
a8a5fa4ca064855b13ebef1cbd6c6f84 *R/summary.modelsum.R
d2d4d05ac0d7ddbe9783dfbc0258c541 *R/summary.tableby.R
108cbcd6647f1d0f547dec75c895630b *R/tableby.R
60d5761a25060b30c7faaea2901974d2 *R/tableby.control.R
eda86a97a7730f32758ed33ecbaeb3c3 *R/summary.tableby.R
cba3c7578f9e5c030fd4c82acd7f7670 *R/tableby.R
9b20f99af77ca57bf5e4911c6d7cf707 *R/tableby.control.R
cd2fdad6d05074fbb3ce706654f0f832 *R/tableby.internal.R
acd5f91a62d6ba44e520d6f1d73447c8 *R/tableby.stat.tests.R
8a94885ae5d499ba5fadbf96dd7e5556 *R/tableby.stats.R
2b32730d1e07d65c444b7bbadd595196 *R/tableby.stats.R
a8199d9cbc7b5cc81a504f7450a2a65b *R/write2.R
fa24ed85ce920343eb89c0f1ccb71553 *R/write2.default.R
95694e0917452475f545132ebacc6ecd *R/write2.internal.R
c758b698e0c957f3004fd3113a10852e *R/write2specific.R
0334e3edc92c80c46988d9609e40f143 *R/yaml.R
efa9906133e987f9abd69af472e09104 *README.md
5a74ebca81d43cec7d05a465e0b0a93e *build/vignette.rds
99e983fffb0e4440e24d25778f21d194 *README.md
1732109edc956fcf4926236ff7992165 *build/vignette.rds
30cd2d9369ee4d94dd76dcbf5a215559 *data/mockstudy.RData
a9b0eb3dac08dcda212cfd67abf6a5ba *inst/doc/comparedf.R
ca30a0326f2242eeaca8977684c31da0 *inst/doc/comparedf.Rmd
ae4c5970effd43fffec67584e8bd5c26 *inst/doc/comparedf.html
1ec3a30bcb8667c36653fa4882de4474 *inst/doc/comparedf.R
acfca7782c03b9fb51e9811311a51150 *inst/doc/comparedf.Rmd
255d5bf10c99ba0b0f5d34073dbcc4d7 *inst/doc/comparedf.html
8a6b20817c3475bea6e85c61b4df62aa *inst/doc/freqlist.R
2ee669dcd5bbfff01fe56a5efa887770 *inst/doc/freqlist.Rmd
d522f1714f00ca00b4baa362656b91b3 *inst/doc/freqlist.html
959bef168b2edd04f6ef65f7ae52c649 *inst/doc/labels.R
61e81a2662d1117e1e2edd3c7b4e873f *inst/doc/labels.Rmd
2f09c5cc64c78aa66510af7c5dbe0bd0 *inst/doc/labels.html
24007e09e0183e7b4a8d3dc7a082e033 *inst/doc/modelsum.R
3afb1b64f61051baaa1094feb5806d1d *inst/doc/modelsum.Rmd
a7521a6d81d3914464a655e5f4df4e8b *inst/doc/modelsum.html
a916f672a0d2f9f70c0111b1114f972b *inst/doc/freqlist.Rmd
36678b00d02b2799130335dce39b1d3b *inst/doc/freqlist.html
c59e9af04a835c727b8259455fe769ec *inst/doc/labels.R
4a383f50cc3f97e762a8eb438642faf0 *inst/doc/labels.Rmd
5de1ad647e65ef77f0e2e3af465c2896 *inst/doc/labels.html
60a26514574b3e82ba69727527a95f4a *inst/doc/modelsum.R
10fcce766c0225933a30e8c08f743892 *inst/doc/modelsum.Rmd
e75fdb4ffb0d20906fa5bf4763baa79b *inst/doc/modelsum.html
5952422462e488184a0279fc950ce329 *inst/doc/paired.R
c5648935a8f77b50b4e0dac60e9c8edf *inst/doc/paired.Rmd
eb2ff71933561bbc8c7c39326ae4c6bb *inst/doc/paired.html
3403766f99d562f36710b21486bdca45 *inst/doc/tableby.R
dc63ea108efcbc185fd58273a05f6863 *inst/doc/tableby.Rmd
955504f30d2d12f5e17b5dc2f5be46b0 *inst/doc/tableby.html
2fc4943406369026a420757e38bb4168 *inst/doc/write2.R
db7f37a696f4b362674408fa26c0b6e6 *inst/doc/write2.Rmd
c50d26d8af17bf109dae118c280194a7 *inst/doc/write2.html
25b3a2b7399fd3f0b66cc2ad63baf113 *inst/doc/paired.Rmd
fd5e7936d25d6aca8f54a9c748a41ea5 *inst/doc/paired.html
291960bdee05a54c6a492922734b80c0 *inst/doc/tableby.R
ad3c42c55c098fe030a2547369904bbd *inst/doc/tableby.Rmd
fe7d5e7f1b8f264397ff50c32ff432d8 *inst/doc/tableby.html
71e7e56bb01fe2d9debf687c8a0114ff *inst/doc/write2.R
18d6ce382881b53ea6249201a6810844 *inst/doc/write2.Rmd
0ba8eaeadb2d39a91e40d6642a58a786 *inst/doc/write2.html
24de5e45bd9a676927300962673534fd *man/NA.operations.Rd
475674b09206071649dbd8c6f9bf5523 *man/arsenal-defunct.Rd
c4debf759ea8683ad63ab3712d9b9f26 *man/arsenal-deprecated.Rd
67bfc5cdc169872d32aaff5f0259261f *man/arsenal.Rd
023f018c3c8d93e6554aae6825cc3971 *man/arsenal_table.Rd
2d1980af993a1b742284415dc4c3ceb8 *man/as.data.frame.freqlist.Rd
707de204eb09931645efd4debda50163 *man/as.data.frame.modelsum.Rd
aba544e0e402b86615e231122eca84c1 *man/as.data.frame.tableby.Rd
41fa9b1eaed2bb1afbfa1491e1429432 *man/comparedf.Rd
7a9bd61167937890592e7992623d722c *man/comparedf.control.Rd
4d21261e996cf9ca9997e6e90f95acbf *man/arsenal.Rd
a966c2c4b3d700c3d03c9f1bf655a567 *man/arsenal_table.Rd
a4a8a304b0fa51d3cc672929d2a74991 *man/as.data.frame.freqlist.Rd
62711eb634b1814d49d3b3b5d07b0a8a *man/as.data.frame.modelsum.Rd
eca39c96234fce19545e5c88c7bf2031 *man/as.data.frame.tableby.Rd
a019595ffe9e5d8913748027c2c2d437 *man/comparedf.Rd
c5b9b08b9e9df07f25b246a0f837147b *man/comparedf.control.Rd
3f4a1a200a7fccc9ec2dc1a1bd1973e8 *man/comparedf.tolerances.Rd
de002884460eae4e73af24deb5d7cd1d *man/diffs.Rd
a7c4a5bf6aba71aaf4d3a65434806c7f *man/figures/arsenal.png
5f10bf084c916bf58d3b62eec8c99a5b *man/formulize.Rd
d917066abd673199f85f2482cf1f54a1 *man/freq.control.Rd
75a5eaa4f624e65201217f99c17bfc09 *man/freqlist.Rd
5bf689d8e6b18e827f0ddc66c6405586 *man/diffs.Rd
a7c4a5bf6aba71aaf4d3a65434806c7f *man/figures/logo.png
a0883c54bc50647d440eca82083bf71b *man/formulize.Rd
df524001e3a56beb780b069d84261fc6 *man/freq.control.Rd
50013c4f7f54e2d96f2d154edff8702e *man/freqlist.Rd
b75e5f48d2db97571fab8fd7a6085b0f *man/freqlist.internal.Rd
34cd314f23fde3c69866dad643492ceb *man/grapes-nin-grapes.Rd
ae8187a555e19ccef09c074964682fb3 *man/grapes-nin-grapes.Rd
cbf7537cace57be39fbff06dea163628 *man/internal.functions.Rd
71c0d28d46550b4fcc876a38d3ad4f30 *man/keep.labels.Rd
95045a8cf7451abf38558db7bb12c6c4 *man/labels.Rd
06d96a03bd7eb27621d7188470481597 *man/mdy.Date.Rd
9d991f6588d75abc5528bc7c6fc28024 *man/mockstudy.Rd
7865b3491fa944522519782f72e4ef51 *man/modelsum.Rd
bbb3a663c8bc1f9e38adfff7d9ac4f0b *man/modelsum.control.Rd
638bdc338b798a4c345a33281c3d23f4 *man/modelsum.Rd
c883ed3a629445e2b7b8a3e9f2bee595 *man/modelsum.control.Rd
15438666096a466d4b2474a8709502f5 *man/modelsum.family.Rd
0c61e87cc402fb0d6ce98e87873fb37c *man/modelsum.internal.Rd
98608eda5b6f1fcb9092ece6b48a61f2 *man/padjust.Rd
f4ce580d9dd11c35ff213cfd2bba453b *man/paired.Rd
479ed612b6eb7500c1148213a20544ff *man/paired.control.Rd
ee4b4cd5c851dbb22acecd7a3591c996 *man/paired.internal.Rd
32e6a21a61bc2634219e9c4ad31d9ffa *man/padjust.Rd
1989a96bccce72252af094414ed2ac4c *man/paired.Rd
91c05999b7d4f95457f2d57b66fd5c50 *man/paired.control.Rd
358900dd4326ea913946830468c762d6 *man/paired.internal.Rd
f92ce5e2b93afeec139f32b8295dd981 *man/reexports.Rd
ae670b101964fb1db3f1993c60691263 *man/summary.comparedf.Rd
b1d9ba3d6e1936d90fb66f84957b5f71 *man/summary.freqlist.Rd
d2e4bcf5ecbec8330edcdc51468388e6 *man/summary.modelsum.Rd
49ac6314502965acd341bf06cfe1b3db *man/summary.tableby.Rd
c7475ba4cdd8581de76937f585e422ff *man/tableby.Rd
721aa3655478c43f8d4a176fa6ec9820 *man/tableby.control.Rd
52ab6763dff81a6e6d6f2c572a6cc96c *man/summary.freqlist.Rd
8e9211aabe11c6ef4f3414991681a645 *man/summary.modelsum.Rd
2b4bf0f48b8f0662218bc3dd21e7c6a6 *man/summary.tableby.Rd
1e9ed040de7c08180f1c2dfd7be67311 *man/tableby.Rd
63c2f609b8d170ade59719d9d6daed4e *man/tableby.control.Rd
60ce70b48e1530b5a1419e9f9aaed771 *man/tableby.internal.Rd
c9992f379e429d64d05bc56aae9486e2 *man/tableby.stats.Rd
63d0ada03a137dfb7c9042d36b2978af *man/tableby.stats.internal.Rd
3734d8a04519e86b83b22bc8d6dcea7b *man/write2.Rd
66be9b1c764198cd16d441dbb1be452d *man/tableby.stats.Rd
3d3ca3f7637cef7403f2a4d877a20aa5 *man/tableby.stats.internal.Rd
da2448fceb32aacc23f58b61c2820132 *man/write2.Rd
e60171f65a62dbf0bc93159d953ad815 *man/write2.internal.Rd
c7fc15db72ee5bc262c6b816ae565f48 *man/write2specific.Rd
a0caade19c743fa6c1dfb2cbdb537a01 *man/yaml.Rd
b86d96d2b720f7aeeb3b9412b87d67ef *tests/testthat.R
48bee3e500877f2e38183bac2f96c09e *tests/testthat/helper-data.R
0e1b2cd238f9c449a27ba0cb5abd358b *tests/testthat/helper-script.R
422b5e4f05f56ef1f659e4c98d318ef5 *tests/testthat/mdat.rds
cccc5048fbbe33d25398dba3c4be4f55 *tests/testthat/test_comparedf.R
460bcfd56875ce2d649e681adf96f83a *tests/testthat/test_formulize.R
0778558d05b56317727198ebe92e64c7 *tests/testthat/test_comparedf.R
cae8cbd85c7b385600f520d296f9d575 *tests/testthat/test_formulize.R
3bb24311a37e7c16473a6ef2e3686494 *tests/testthat/test_freqlist.R
c04c29dbdce4f382d34b30c0bbe57684 *tests/testthat/test_keep.labels.R
de47e8a77a6ad7ac83d6c414ef092ab9 *tests/testthat/test_lhs_freqlist.R
d4b28ce72864e142f71daa607e02bc1b *tests/testthat/test_lhs_modelsum.R
d598acc5f21c376e6ddbd6d7665ad6b6 *tests/testthat/test_lhs_tableby.R
b4ebb99fbdc66269d9a7ce3af6921b7b *tests/testthat/test_modelsum.R
f2c589164d4d8e0aca2827044b2be625 *tests/testthat/test_paired.R
37dd075e96016d355421a622367a9f4b *tests/testthat/test_tableby.R
bdaecdeb6e65c756fb906d361ee73843 *tests/testthat/test_modelsum.R
b1eb6849dc45ce81cb6aa876bb42df25 *tests/testthat/test_paired.R
18c45e9a5702c1ddd06f692a4b73ee13 *tests/testthat/test_tableby.R
4e14f1079c9ed1b03c99d38e7944b8dc *tests/testthat/test_write2.R
a3cb5fc2c67b666bd620946a87f19db7 *tests/testthat/write2.char.html.Rmd
ba6f1bee225bd630589a71a317b22127 *tests/testthat/write2.freqlist.doc.Rmd
Expand All @@ -144,10 +144,10 @@ fc47e093d3d5bd5ddfb72a3a057786c9 *tests/testthat/write2.mylists.pdf.Rmd
30b1725d421f80f460816a1cf453cda3 *tests/testthat/write2.render.html.Rmd
91341e80ce604a3f513b99d4f93116ec *tests/testthat/write2.tableby.html.Rmd
2664f1e86af3bc19f4364e0eb1d1ab88 *tests/testthat/write2.yaml.pdf.Rmd
ca30a0326f2242eeaca8977684c31da0 *vignettes/comparedf.Rmd
2ee669dcd5bbfff01fe56a5efa887770 *vignettes/freqlist.Rmd
61e81a2662d1117e1e2edd3c7b4e873f *vignettes/labels.Rmd
3afb1b64f61051baaa1094feb5806d1d *vignettes/modelsum.Rmd
c5648935a8f77b50b4e0dac60e9c8edf *vignettes/paired.Rmd
dc63ea108efcbc185fd58273a05f6863 *vignettes/tableby.Rmd
db7f37a696f4b362674408fa26c0b6e6 *vignettes/write2.Rmd
acfca7782c03b9fb51e9811311a51150 *vignettes/comparedf.Rmd
a916f672a0d2f9f70c0111b1114f972b *vignettes/freqlist.Rmd
4a383f50cc3f97e762a8eb438642faf0 *vignettes/labels.Rmd
10fcce766c0225933a30e8c08f743892 *vignettes/modelsum.Rmd
25b3a2b7399fd3f0b66cc2ad63baf113 *vignettes/paired.Rmd
ad3c42c55c098fe030a2547369904bbd *vignettes/tableby.Rmd
18d6ce382881b53ea6249201a6810844 *vignettes/write2.Rmd
5 changes: 5 additions & 0 deletions NAMESPACE
Expand Up @@ -87,6 +87,7 @@ export(Nevents)
export(NeventsSurv)
export(Nmiss)
export(Nmiss2)
export(Npct)
export(Nrisk)
export(NriskSurv)
export(allNA)
Expand All @@ -105,6 +106,10 @@ export(diffs)
export(formulize)
export(freq.control)
export(freqlist)
export(gmean)
export(gmeanCI)
export(gmeansd)
export(gsd)
export(has_strata)
export(head)
export(includeNA)
Expand Down
49 changes: 49 additions & 0 deletions NEWS.md
@@ -1,3 +1,52 @@
# arsenal v3.4.0

* Added a `pkgdown` site: https://eheinzen.github.io/arsenal/

* Moved knitr to an import. (#255)

* `comparedf()`: Added support for tolerances by variable. (#167)

* `tableby()` / `paired()`:

- `tableby()`:

* Allowed for changing of "Overall" and "Total" labels. (#253, #261)

* Allowed for suppression of N's in the header. (#256, #36)

* Allowed for digits formatting of N's in the header. (#257)

* Escaped `%` for `text="latex"`. (#258)

* Added to vignette describing `merge(all=TRUE)`.

* Fixed vignette re: outputting to CSV. (#278)

- `paired()`:

* Allowed for changing of "Difference" label. (#271)

* Removed "..." from the documentation for `paired.internal` per CRAN's request (PR#16223 for R-devel).

- Added support for "min", "max", "sd", "mean", and "var" (#259) and
"gmean", "gsd", "gmeansd", "gmeanCI" (#260) and "Npct" (#263) and "sum" (#281).

- Added a more informative error message when no summary statistic is computed. (#273)

* `modelsum()`:

- Fixed "statistic.F" for family="gaussian". (#262)

- Fixed "Nevents" for family="survival". (#266)

- Fixed vignette re: outputting to CSV. (#278)

* `freqlist()`: Updated `head.summary.freqlist()` and `tail.summary.freqlist()` to comply with new R-devel definitions.

* Updated "labels" vignette. (#267)

* Added `escape =` argument to `formulize()`. (#282)

# arsenal v3.3.0

* `tableby()` / `paired()`:
Expand Down

0 comments on commit a1d1f66

Please sign in to comment.