February 2024
Patch fixing small bugs from last CRAN release.
{voi}
package to Suggests in DESCRIPTION and added requireNamespace()
in evppi()
to avoid error when not installed (e.g. on CRAN) (f3e3e3e)man-roxygen
folder to md (cf858b1){ggplot2}
changed in version 3 to linewidth
from size
argument and had only changed some of the code. Updated to scale_linewidth_manual()
. (60bea9c)testdata
folder {testthat}
unit tests. (cbce0fa)November 2023
Some cosmetic changes to clean up
October 2023
Moved internal EVPPI calculation out of BCEA
and now uses voi
package instead. Refactoring but retaining same interface and functionality.
{voi}
which has a patch so that BCEA can use it without losing functionality
{voi}
needed when we use check = TRUE
in voi::evppi()
in order to access fitting data (6e436b5, 94f5fc5)evppi()
tested against all use cases in BCEA book (1c1457d2)evppi()
(f2e4d005)voi
package for methods sal
and so
(#140)evppi()
matching output of old evppi()
(1e2c5e7)voi
needed when we use check = TRUE
in voi::evppi()
in order to access fitting data (6e436b5, 94f5fc5)INLA
package to be available inside of BCEA
so can remove direct dependency. This helps with passing CRAN checks and GitHub Actions ()June 2023
{MCMCvis}
wasn’t used conditionally in unit test. Moved to Required packages in DESCRIPTION
.May 2023
plot.bcea()
(cf1ee43)make.report()
change variable name (f940f2e)summary.bcea()
now only prints results for chosen comparisons and not always all of them. kstar
and best
in bcea()
object were not updated with subset of interventions (#125)withr::with_par()
used in plotting function plot.bcea()
to only temporarily change graphics parameters. (725c536)@md
and markdown syntax in function documentationpsa.struct()
to add the absolute value in the formula to compute the weights (1cea278)dplyr
piping new syntax from .data$*
to simply using speech marks "*"
(2b280ad)August 2022
summary.bcea()
wasn’t passing wtp
argument to sim_table()
internally (5440eb3)summary()
was the same for basic bcea
and multi.ce
objects. Now has own summary.pairwise()
method. (88ade51)struct.psa()
output now works with summary()
and plots all still work without having to use $ to get at bcea
object as before. (b014c83)wtp
argument in bcea()
to k
because wtp
in the plotting functions refers to the wtp line and so is a scalar whereas k
is a grid of points. Added an error message to use new argument. (b014c83)bcea()
still allows a scalar k
but added a warning that this will give empty plots.r-lib/Actions
version 2. There was an error with not finding INLA but this was solved by Gabor at RStudio (see thread here https://community.rstudio.com/t/not-finding-inla-package-not-on-cran-in-actions/141398)GrassmannOptim()
function inside of package with acknowledgement.Rdpack
for bibliography in documentation (229c96d)Smoking
and Vaccine
data sets have been renamed from c
and e
to cost
and eff
. This is to avoid any conflict with the c()
function.ref_first
argument (cc38f07)ceplane.plot()
and ceac.plot()
ggplot2
versions (6808aa6)ceplane.plot()
of icer_annot
to annotate each of the ICER points with the text label of the intervention name. Only for ggplot2
at the moment. (a7b4beb)pos
argument to contour2()
so that its consistent with contour()
and ceplane.plot()
. (50f8f8b)ref
argument by name as well as index in bcea()
. (9eab459)April 2022
ceplane_ggplot()
missing legendevppi()
ceplane.plot()
ceplane_plot_base()
wasn’t showing grey area. Fixed by removing alpha
transparencyceac.plot()
wasn’t showing confidence interval by default for one comparisoncompute_vi()
setReferenceGroup()
for CEAC plot legend error; doesn’t use supplied names but generic intervention 1, intervention 2, … (#82)multi.ce()
line for reference group (#80)cli
package for warning messagesggplot2
format style arguments e.g. as list
ceac.plot()
) to take more style arguments than before for e.g. colour of lines, types of points and line thickness.ceplane.plot()
code in contour()
goodpractice
package suggested changes
seq_len()
, remove ;
contour2()
changed so xlim
, ylim
arguments are optional; the same as ceplane.plot()
since they are passes to itcontour()
and ceplane.plot()
vignettes writtenOct 2021
bcea()
is now a helper function which calls the constructor new_bcea()
, separating concerns.new_bcea()
composed of smaller HEE statistics functions with names starting with compute_*
e.g. compute_CEAC()
, compute_EIB()
,…. This allows us to call and test them individually. It also allows more flexibility in changing or adding functionality to new_bcea()
.ceplane_plot_ggplot()
, are also split into parameter and data setting and plotting components. This modulisation allows us to add new layers to plots or modify existing parameter sets and defaults. We could also return the data without the plotting step as in e.g. ggplot2::autoplot()
. It also means we can reuse some functionality across plots such as axes and legend setting e.g. BCEA:::where_legend()
.ceac_plot()
changes
mce.plot()
. Now dispatched on ceac.plot()
for both multi.ce()
and bcea()
outputs.bcea
type object.summary()
and sim_table()
removed.createInputs()
used for EVPI calculation now dispatches S3 methods by JAGS, BUGS, Stan and other R data types.make.report()
rewritten to have separate section files.bcea()
construction or separately using a setter functions setComparisons()
.setKmax()
and setReferenceGroup()
, respectively.multi.ce()
and CEriskAv()
also now work similarly. They operate by modifying the bcea
object, rather than creating new one (think decorator pattern).bcea()
methods for JAGS, WinBUGS, Stan (#76)NEWS.md
file to track changes to the package. Details about previous releases, such as dates, versions, fixes and enhancements obtained from CRAN and code comments so a little patchy.pkgdown
GitHub site made.26 Aug 2019
5 Aug 2019
11 July 2018
evppi
to allow N
to be selected in all methodsdiag.evppi
18 Nov 2016
Nov 2016
legend.spacing()
and plot.title
hjust
argument)22 May 2016
info.rank
25 Jan 2016
ceef.plot
to align with ggplot2 v2.0.0Oct 2015
Oct 2015
EVPPI
function polished up6 May 2015 2015
xlim
& ylim
in the ceplane.plot()
, contour()
and contour2()
functionsbcea
for a scalar wtpevppi()
function and method has been renamed evppi0
, which means there’s also a new plot.evppi0
method13 Jan 2015
if (require())
to if (requireNamespace(,quietly=TRUE))
ceef.plot
functionOct 2014
ceef.plot
, createInputs
, struct.psa
13 Jan 2015
ceef.plot
function included, additional modifications2 Dec 2013
2 Dec 2013
ceac.plot
and eib.plot
: option comparison included for base graphics2 Dec 2013
31 July 2013
30 July 2013
CreateInputs()
, which takes as input an object in the class rjags or bugsevppi()
evppi
and show the overall EVPI with the EVPPI for the selected parameter(s)3 July 2013
17 September 2012
22 Feb 2013
15 Sept 2012
13 May 2012