[R-sig-Geo] Links to Zika virus paper

[boB Rudis]

I will try to handle any other replies off-list to keep the list
on-topic, but wanted to reinforce my opine on this topic. My co-author
& I believed so strongly in the need to ensure R & R package author
work was properly acknowledged that we managed to get Wiley to allow 2
pages of package citations in our book, Data-Driven Security.
Virtually everything (with a small fraction of exceptions) I produce
in my cybersecurity research  is owed to a cadre of coders &|
scientists who have contributed R packages to make it possible. #ty.
Y'all rock ;-)

On Thu, Apr 21, 2016 at 8:00 AM, Roman Luštrik <roman.lustrik at gmail.com> wrote:
> Bob opens up an interesting topic, perhaps not really fit for this mailing
> list, of which packages to cite. Most packages load dependencies. Should
> these dependencies be cited? How do you handle this issue in citing
> packages?
>
> Cheers,
> Roman
>
> On Thu, Apr 21, 2016 at 1:29 PM, boB Rudis <bob at rudis.net> wrote:
>>
>> Agreed it was great to see "Each of the 300 individual models was
>> fitted using the gbm.step subroutine in the dismo package in the R
>> statistical programming environment (Elith et al. 2008)" in there and
>> also agreed that the following should have made it into the citations
>> (assuming only library(dismo) was done which is a terrible assumption
>> :-). Many thanks to Roger, Edzer (et al) as well. Critial,
>> foundational work which made this paper possible.
>>
>> @Manual{R-base,
>>   title = {R: A Language and Environment for Statistical Computing},
>>   author = {{R Core Team}},
>>   organization = {R Foundation for Statistical Computing},
>>   address = {Vienna, Austria},
>>   year = {2016},
>>   url = {https://www.R-project.org/},
>> }
>> @Manual{R-dismo,
>>   title = {dismo: Species Distribution Modeling},
>>   author = {Robert J. Hijmans and Steven Phillips and John Leathwick
>> and Jane Elith},
>>   year = {2015},
>>   note = {R package version 1.0-12},
>>   url = {https://CRAN.R-project.org/package=dismo},
>> }
>> @Manual{R-raster,
>>   title = {raster: Geographic Data Analysis and Modeling},
>>   author = {Robert J. Hijmans},
>>   year = {2015},
>>   note = {R package version 2.5-2},
>>   url = {https://CRAN.R-project.org/package=raster},
>> }
>> @Manual{R-sp,
>>   title = {sp: Classes and Methods for Spatial Data},
>>   author = {Edzer Pebesma and Roger Bivand},
>>   year = {2015},
>>   note = {R package version 1.2-1},
>>   url = {https://CRAN.R-project.org/package=sp},
>> }
>>
>> On Thu, Apr 21, 2016 at 4:43 AM, Barry Rowlingson
>> <b.rowlingson at lancaster.ac.uk> wrote:
>> > On Thu, Apr 21, 2016 at 8:19 AM, Roger Bivand <Roger.Bivand at nhh.no>
>> > wrote:
>> >> Why we do what we do:
>> >>
>> >> Congratulations to Robert Hijmans and others maintaining the dismo
>> >> package:
>> >>
>> >> https://cran.r-project.org/web/packages/dismo/index.html
>> >>
>> >> which is the computational basis for:
>> >>
>> >> http://elifesciences.org/content/5/e15272v1
>> >>
>> >> and reported on in:
>> >>
>> >> http://www.bbc.com/news/health-36090650
>> >
>> >  Great stuff, but sadly I don't see the either R itself or the dismo
>> > package cited in the journal article - the one mention of dismo gets a
>> > reference to a paper (Elith, J., J. R. Leathwick & T. Hastie (2008)  A
>> > working guide to boosted regression trees. J Anim Ecol, 77, 802-13)
>> > and nothing else.
>> >
>> >   *sigh*
>> >
>> > Barry
>> >
>> > _______________________________________________
>> > R-sig-Geo mailing list
>> > R-sig-Geo at r-project.org
>> > https://stat.ethz.ch/mailman/listinfo/r-sig-geo
>>
>> _______________________________________________
>> R-sig-Geo mailing list
>> R-sig-Geo at r-project.org
>> https://stat.ethz.ch/mailman/listinfo/r-sig-geo
>
>
>
>
> --
> In God we trust, all others bring data.