Add the following to the YAML (i.e the top of the markdown document) when writing a report on the server.
csl: /home/styles/harvard-bournemouth-university.csl
dir("/home/styles",pattern="*bournemouth-uni*")## [1] "harvard-bournemouth-university.csl"dir("/home/styles",pattern="ecology")## [1] "austral-ecology.csl"
## [2] "avian-conservation-and-ecology.csl"
## [3] "ecology-and-society.csl"
## [4] "ecology-letters.csl"
## [5] "ecology-of-freshwater-fish.csl"
## [6] "ecology.csl"
## [7] "evolutionary-ecology-research.csl"
## [8] "frontiers-in-ecology-and-the-environment.csl"
## [9] "global-ecology-and-biogeography.csl"
## [10] "journal-of-industrial-ecology.csl"
## [11] "journal-of-minimally-invasive-gynecology.csl"
## [12] "journal-of-plant-ecology.csl"
## [13] "journal-of-pollination-ecology.csl"
## [14] "journal-of-tropical-ecology.csl"
## [15] "methods-in-ecology-and-evolution.csl"
## [16] "obstetrics-and-gynecology-science.csl"
## [17] "restoration-ecology.csl"Add this to the YAML
bibliography: /home/refs/collection.bib
title: “Citations in Markdown”
author: “Duncan Golicher”
date: “12/26/2018”
output: html_document
bibliography: /home/refs/R.bib
csl: /home/styles/harvard-bournemouth-university.csl
link-citations: true
Using the following.
[@Bolker2008][@Crawley2014; @Zuur2009; @Zuur2009a]
A ref. (Bolker 2008)
Some others.
(Golicher et al. 2011) (Golicher et al. 2006) (Stillman et al. 2008) Golicher et al. (2006)
(Zuur et al. 2009a, 2009b, Crawley 2014)
## Copy the file locally
#system ("cp /home/refs/collection.bib collections.bib")#system ("cp collections.bib /home/refs/collection.bib ")Bolker, B. M., 2008. Ecological models and data in R [online]. Princeton University Press. Available from: http://ms.mcmaster.ca/~bolker/emdbook/.
Crawley, M. J., 2014. Statistics: An introduction using R [online]. 2nd ed. Wiley. Available from: http://www.bio.ic.ac.uk/research/crawley/statistics/.
Golicher, D. J., Cayuela, L., Newton, A. C., and Name, J., 2011. Effects of Climate Change on the Potential Species Richness of Mesoamerican Forests. Change, 1–10.
Golicher, D. J., O’Hara, R. B., Ruíz-Montoya, L., and Cayuela, L., 2006. Lifting a veil on diversity: a Bayesian approach to fitting relative-abundance models. Ecological applications : a publication of the Ecological Society of America [online], 16 (1), 202–12. Available from: http://www.ncbi.nlm.nih.gov/pubmed/16705973.
Stillman, R. A., Smart, S. L., and Norris, K. J., 2008. Measuring the functional responses of farmland birds: an example for a declining seed-feeding bunting. Journal of Animal Ecology, 77 (4), 687–695.
Zuur, A. F., Ieno, E. N., and Meesters, E., 2009a. A beginner’s guide to R. Springer.
Zuur, A., Ieno, E. N., Walker, N., Saveiliev, A. A., and Smith, G. M., 2009b. Mixed effects models and extensions in ecology with R. New York: Springer.