-
Recent comments
MPK’s research notebook- Reaction norms for larval viability in Drosophila pseudoobscura November 7, 2011
- Results November 7, 2011
- LRG lab meeting (November 7, 2011) November 7, 2011
- Genotype-by-environment interaction figure November 7, 2011
- Model November 7, 2011
- Woltereck November 7, 2011
- Introduction November 7, 2011
- Questions needing answers November 7, 2011
- Daphnia November 7, 2011
- About November 7, 2011
- My CiteULike
- Density Dependence Slows Invader Spread in Fragmented Landscapes Jonathan Levine
- Names are key to the big new biology
- Community ecology: stasis, evolution or revolution?
- Assessing rapid evolution in a changing environment
- Adaptation genomics: the next generation
- A Bacterium That Can Grow by Using Arsenic Instead of Phosphorus
- Low-altitude airbursts and the impact threat D Crawford
- Aging in a Long-Lived Clonal Tree Sarah Otto
- Using Environmental Correlations to Identify Loci Underlying Local Adaptation Jonathan Pritchard
- Mathematics Is Biology's Next Microscope, Only Better; Biology Is Mathematics' Next Physics, Only Better Joel Cohen
-
- Unknown Feed
- An error has occurred; the feed is probably down. Try again later.
Category Archives: open science
F1000 review: Open science is a research accelerator
As promised previously, today the following post-publication evaluation of Open Science is a research accelerator by Michael Woelfle, Piero Olliaro and Matthew H. Todd appeared in Faculty of 1000 Biology: Pineda-Krch, M. Faculty of 1000 Biology, 14 November 2011 http://f1000.com/13352995 It is commonly taken for granted that difficult … Continue reading
Cycles in finite populations: A reproducible seminar in three acts
For this years Halloween I presented the mathematical biology seminar at the Centre for Mathematical Biology. Here is the title and the abstract… Cycles in finite populations: a reproducible seminar in three acts Many natural populations exhibit cyclic fluctuations. Explaining the underlying … Continue reading
Posted in LaTeX, Open Notebook science, open science, predator-prey model, presentation, programing, R, Sweave
11 Comments
Open Access(ish) contribution: Cycles in finite populations: a reproducible seminar in three acts
It’s Open Access week and this is what the hoopla is all about “Open Access” to information – the free, immediate, online access to the results of scholarly research, and the right to use and re-use those results as you need … Continue reading
(everybody shout) SHOW ME THE DATA: A presubmission inquiry in one-act
Some Open Access journals require presubmission inquiries. Most of them require you to write a sort of mini-paper of your full paper, you send it to them and then the editor gives you their (virtual) thumbs up or down for … Continue reading
Posted in humour, manuscript, open science, peer review
Leave a comment
Turbo charged Open Science: this sort of thing is my bag, baby
A remarkable commentary appeared today in Nature Chemistry entitled Open Science is a research accelerator. In this commentary Michael Woelfle, Piero Olliaro and Matthew H. Todd describe a case study of an Open Science research project they conducted with the aim devising an alternative … Continue reading
What is R, really?
On CRAN, the official web home of all things R it says, R is a free software environment for statistical computing and graphics. Well, that sounds all hunky dory. But let’s take a close look at what this statement really … Continue reading
Posted in computing, open science, R
7 Comments
Starting an Open Notebook Science project
Traditionally the day-to-day activities of academic research has been a closed endeavor where research note books are usually only available to people in the lab. Open Notebook Science (ONS), in contrast, represents a revolutionary concept going against the grain of … Continue reading
Posted in LaTeX, Open Notebook science, open science, Science Foo, Subversion
4 Comments
Open Access – the bedrock of academia and the scientific community
There is a letter in yesterday’s The Times by John Sulston and Joseph Stiglitz (both Nobel laureates) about the ownership of science and how it is held back by outdated laws (think about that NPG). I’ll rest my case and … Continue reading
Posted in Nature, Open Access, open science
Leave a comment
The Year of Evolution in the age of Open Access
Next year, 2009, is the 200th anniversary of Darwin’s birth (February 12, 1809), as well as being the 150th anniversary of the publication of his masterpiece, “On the Origin of Species” (November 24, 1859). Although much of the upcoming celebrations … Continue reading
SciFoo 2008 – here I come!
Got an email the other day from Tim O’Reilly, Chris DiBona, and Timo Hannay inviting me to this years Science Foo Camp, or as they say: We’d like to invite you to join us on the weekend of August 8-10 … Continue reading
Sharing of scientific data
Open Access means that scientific data also needs to be shared. Together with a consortium of journals and scientific societies in evolutionary biology and related disciplines, NESCent and the MRC are studying attitudes and practices in data sharing among evolutionary … Continue reading
Posted in open science, science
Tagged data sharing, evolutionary biology, NASCent, Open Access, survey
1 Comment
Bring on the Open Access journals
Lately I have been pondering a about Jonathan Eisen’s inauguration editorial as the new Academic Editor in Chief of PLoS Biology. Although I have always felt that Open Access (OA) is the way to go I have never seen a … Continue reading
Posted in closed science, Jonathan Eisen, open science, PLoS
2 Comments
2nd place for evolution and ecology at Nature Preceedings
I payed a visit to Nature Preceedings today and was happy to see that ecology and evolutionary biology (EEB) is in second place in term of number of submissions that are categorized under this subject. For a while EEB seemed … Continue reading
Open Source/Science – drilling down to unknown depths in unexpected places
Yet another point John Chambers addressed in his key note speech (see previous post Programing as a higher craft) was the virtue of Open Source software. According to John there are two principles for programing (with R) Enable effective and … Continue reading
Posted in meeting, open science, R, useR 2007, useR!
Leave a comment
Interview with Rosie Redfield on Open Science
Blind.Scientist has a really nice interview with Rosie Redfield at University of British Columbia. She is a microbiologist, a leading Open Science practitioner (one of the few that actually puts words into action), and happens to be my former postdoc … Continue reading
Posted in open science, Pedro Beltrão, Rosie Redfield
Leave a comment
Open-Source Science
This is not exactly new but it is still highly relevant. In the July 24, 2006 issue of the Chemical & Engineering News there is a story about a Open-Source Science project operating in true bazaar mode. The project, called … Continue reading
Posted in academia, epidemiology, open science, science, Science Foo
5 Comments
My wetware is open!
Hat tip to Pedro Beltrão of the Public rambling blog for alerting me to the OpenWetWare supporting a more open scientific model. According to OWW web page: OpenWetWare is an effort to promote the sharing of information, know-how, and wisdom … Continue reading
Posted in open science, Paul Erdős, PKL
1 Comment
Spies in the academic bazaar
The Editor’s blog of Nature Network Boston picked up a news story entitled FBI tells scientists: watch out for spies! (original story is on the Boston.com web site). “Federal agents are warning leaders at some of the region’s top universities … Continue reading
Posted in academia, closed science, open science, science
Leave a comment
Ten reasons for a Cathedral model of scientific research
So why is it that the majority of researchers still follow the the Cathedral model of scientific research. Here are some possible reasons I can think of, I am sure others could be added but I think this probably captures … Continue reading
The academic Cathedral and the Bazaar
There is an Editorial in Nature Structural & Molecular Biology (14, 457; 2007) entitled New data at conferences, please pleading to the academic community to only present new results at conferences. The basic idea is that discussions and dialogs ensuing … Continue reading
