How Much Methodology Should go into Conference Talks?

The following post was written by Tim Poisot. To see the original version, please visit his blog.

Tim is an Associate Editor who works on Applications submissions for Methods in Ecology and Evolution. His research interests include spatial and temporal dynamics of species interactions at the community level, the relevance of variability in community structure on emerging ecosystem properties, and the evolutionary dynamics of multi-species assemblages.

I am back from the centennial meeting of the Ecological Society of America. I met a lot of great people, saw a lot of great talks, and had lovely discussions. One thing that has been in the back of my mind for a while though, is the question of how much methodology should go into an oral presentation?

How much methodology should be in your presentation? © Phil Whitehouse
How much methodology should be in your presentation? © Phil Whitehouse

Methods are important  —  over the last two years I have found that this has been the part of papers I criticize the most during peer review. Any result is only as robust as its least robust element and there are, in ecology, enough sources of variability that we do not want methods to add any more. As a consequence, appreciating a result and its robustness require that we be able to understand and evaluate the methods by which this result has been obtained.

There are a few elements to evaluating a method. Does it rely on a sound and tested theory? Is it properly applied? Is the method correctly implemented? All of these questions (and some more) should be asked —  and answered in the affirmative  —  before we decide to accept a result. If not, we are putting ourselves in the position to blindly accept what we are being told. Continue reading “How Much Methodology Should go into Conference Talks?”

Issue 6.7

Issue 6.7 is now online!

The July issue of Methods is now online!

This month’s issue contains two Applications article and one Open Access article, all of which are freely available.

fuzzySim: Binary similarity indices are widely used in ecology. This study proposes fuzzy versions of the binary similarity indices most commonly used in ecology, so that they can be directly applied to continuous (fuzzy) rather than binary occurrence values, producing more realistic similarity assessments. fuzzySim is an open source software package which is also available for R.

 Actave.net: A freely accessible, web-based analysis tool for complex activity data, actave.net provides cloud-based and automatic computation of daily aggregates of various activity parameters based on recorded immersion data. It provides maps and graphs for data exploration, download of processed data for modelling and statistical analysis, and tools for sharing results with other users.

Anna Sturrock et al. provide this month’s Open Access article. In ‘Quantifying physiological influences on otolith microchemistry‘ the authors test relationships between otolith chemistry and environmental and physiological variables. The influence of physiological factors on otolith composition was particularly evident in Sr/Ca ratios, the most widely used elemental marker in applied otolith microchemistry studies. This paper was reported on in the media recently. You can read more about it here.

Our July issue also features articles on Monitoring, Remote Sensing, Conservation, Genetics and three papers on Statistics. Continue reading “Issue 6.7”

Advances in Phylogenetic Methods – The Applications Papers

Original Image ©PLOS One Phylogeny
Original Image ©PLOS One Phylogeny

Timed to coincide with Evolution 2015, we have released a new Virtual Issue on Phylogenetic Methods. All of the articles in this Virtual Issue will be freely available for a limited period.

On Friday, we gave some more information about the research articles in this Virtual Issue. In this post, we will be focusing on the Applications papers.

Applications papers introduce new tools for research, which provide practitioners with an important source of information and background on the tools they use. In this Virtual Issue we have highlighted the newest Applications papers that describe how phylogenetic methods are contributing to the fields of ecology and evolution. These include tools with aims as diverse as phylogenetic tree reconstruction and analysing phylogenetic diversity in communities. All Applications papers, not just those in the Virtual Issue, are free to access.

You can see a little more information on each of the Applications Papers below.

Continue reading “Advances in Phylogenetic Methods – The Applications Papers”

Virtual Issue: Advances in Phylogenetic Methods

Original Image ©PLOS One Phylogeny
Original Image ©PLOS One Phylogeny

Timed to coincide with Evolution 2015, we have released a new Virtual Issue on Phylogenetic Methods. All of the articles in this Virtual Issue will be freely available for a limited period.

An understanding of the tree of life contributes to many facets of biology. This Virtual Issue has assembled studies that showcase the breadth of the utility of phylogenetic trees, including phylogenetic beta diversity, trait evolution, diversification, biodiversity studies, phylogenetic signal, biogeography, ecosystem functioning, and host-pathogen dynamics.

The Research papers included are excellent examples of new ways that phylogenies can be applied to central questions in ecology, evolution and biodiversity, such as measuring niche conservatism, trait evolution and diversification rates. The issue also has articles on barcoding methods, which increasingly are used to understand phylogenetic and functional diversity.

You can see a little more information on each of the articles below.

Continue reading “Virtual Issue: Advances in Phylogenetic Methods”

Issue 6.6

Issue 6.6 is now online!

The June issue of Methods is now online!

This month’s issue contains one Applications article and one Open Access article.

VirtualCom: A simple and readily usable tool that will help to resolve theoretical and methodological issues in community ecology. VirtualCom simulates the evolution of the pool of regionally occurring species, the process-based assembly of native communities and the invasion of novel species into native communities. One of the authors of this Application is the 2014 Robert May Young Investigator Prize Winner, Laure Gallien.

Calibrating animal-borne proximity loggers, this month’s only Open Access article, comes from Christian Rutz et al. The authors calibrated a recently developed digital proximity-logging system (‘Encounternet’) for deployment on a wild population of New Caledonian crows. They show that, using signal-strength information only, it is possible to assign crow encounters reliably to predefined distance classes, enabling powerful analyses of social dynamics. Their study demonstrates that well-calibrated proximity-logging systems can be used to chart social associations of free-ranging animals over a range of biologically meaningful distances.

Our June issue also features articles on Phylogenetic MethodsPhysiological Ecology, Biomonitoring and Conservation, Species Distribution Monitoring and Bioinformatics. Continue reading “Issue 6.6”

Issue 6.5

Issue 6.5 is now online!

The May issue of Methods is now online!

We have two freely available articles this month: one Application and one Open Access Article.

rSPACE: An open-source R package for implementing a spatially based power analysis for designing monitoring programs. This method incorporates information on species biology and habitat to parameterize a spatially explicit population simulation.

Tim Lucas et al. provide this month’s Open Access article: A generalised random encounter model for estimating animal density with remote sensor data. The authors have developed a Generalised Random Encounter Model (gREM) to estimate absolute animal density from count data from both camera traps and acoustic detectors. They show that gREM produces accurate estimates of absolute animal density for all combinations of sensor detection widths and animal signal widths. This model is applicable for count data obtained in both marine and terrestrial environments, visually or acoustically. It could be used for big cats, sharks, birds, echolocating bats, cetaceans and much more. Continue reading “Issue 6.5”

Issue 6.4: Opportunities at the Interface Between Ecology and Statistics

Issue 6.4 is now online!

© Chun-Huo Chiu and Ching-Wen Cheng

The April issue of Methods, which includes our latest Special Feature: “Opportunities at the Interface Between Ecology and Statistics” is now online!

Opportunities ar the Interface Between Ecology and Statistics is a collection of eight articles which arose from the Eco-Stats Symposium at the University of New South Wales (Australia) in July 2013.This Symposium was designed to be a collaborative forum for researchers with interests in ecology and statistics. It brought together internationally recognised leaders in these two fields (such as Jane Elith, Trevor Hastie, Anne Chao and Shirley Pledger) – many of whom have contributed articles to this Special Feature.

The Eco-Stats Symposium was arranged around five special topics, all of which are represented in this issue of Methods. Those five topics are:

In his Editorial for the Special Feature, Guest Editor David Warton suggests that one of the reasons for the success of Methods in Ecology and Evolution may be that it provides a forum for statisticians and ecologists to interact. The articles in this issue, and the conference that gave rise to them, show that these interactions can provide significant benefits for both groups.

There will be another Eco-Stats Symposium at the University of New South Wales in December of this year (8-10 December, 2015).
For more details on this, please click here.
Continue reading “Issue 6.4: Opportunities at the Interface Between Ecology and Statistics”

Associate Editor Profile: LOUISE JOHNSON

Dr Louise Johnson, a population geneticist working on the evolution of genetic systems, has been an Associate Editor for Methods in Ecology and Evolution since October 2013. In that time she has handled a range of manuscripts falling within her areas of expertise (primarily molecular evolution, population genetics and genomes).

Louise Johnson
Dr Louise Johnson

Louise began her academic career with a degree in Genetics at the University of Edinburgh. She then moved south to complete her PhD on the evolution of mating systems in yeast at Imperial College London under the supervision of Professor Austin Burt. Following her successful time in London, she took up post-doctorate positions at the University of Nottingham (working on transposable elements with Professor John Brookfield) and across the Atlantic at the University of Virginia (looking at genome defences with Professor Janis Antonovics and Professor Michael Hood). Louise returned to the UK in 2006 to take up an RCUK Fellowship at the University of Reading and has been there ever since.

As part of our series of Editor Profiles, we asked Louise to tell us about some of her current research:

There are three projects which I am currently working on that I would like to outline. I’ll be discussing the cancer project – or at least the story so far – at the Methods in Ecology and Evolution 5th Anniversary Symposium later this month. Do check out the programme, and I hope to see you there! The whole point of a methods journal is to help each other do our research as well and easily as possible, so there’s a built-in community spirit about MEE, which bodes well for a fun and useful meeting. Before I start I should also say that I’m lucky to have amazing collaborators at Reading and beyond: for the projects below, credit is particularly due to my colleagues Rob Jackson and Tiffany Taylor, who had a huge input, and to Mike Brockhurst at York. Continue reading “Associate Editor Profile: LOUISE JOHNSON”

Issue 6.3

Issue 6.3 is now online!

The March issue of Methods is now online!

We have three freely available Applications articles in this issue. Anyone can access these with no subscription required and no charge to download.

TR8: This R package was built to provide plant scientists with a simple tool for retrieving plant functional traits from freely accessible online traitbases.

StereoMorph: A new R package for the rapid and accurate collection of 3D landmarks and curves using two standard digital cameras.

MotionMeerkat: A new standalone program that identifies motion events from a video stream. This tool reduces the time needed to review videos and accommodates a variety of inputs.

This month we have a total of FIVE Open Access articles. That makes eight articles in this issue of Methods in Ecology and Evolution that you can read for free!

Continue reading “Issue 6.3”

Our 5th Anniversary Symposium

Charles Darwin House, London, UK: 10:00 – 18:00 (GMT) Alberta Room, Dining Centre, University of Calgary, Canada: 08:30 – 17:00 (MST) 22 April 2015 Methods in Ecology and Evolution, the British Ecological Society’s youngest journal, turns five this year. To celebrate we will be holding a joint Symposium – beginning in the UK and concluding in Canada. We will be hearing what’s in store for … Continue reading Our 5th Anniversary Symposium