OpenScience / open science



Relax – Molecular dynamics by NMR data analysis

Edward d’Auvergne pointed out the relax program, which looks like a useful way to connect experimental NMR spectra with molecular dynamics simulations. relax is designed for the study of molecular dynamics of organic molecules, proteins, RNA, DNA, sugars, and other … Continue reading

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Fantastic news on the Open Access front

The White House just posted a new policy memorandum in response to the Open Access petition:  Expanding Public Access to the Results of Federally Funded Research.   This is great news for Open Science!

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Do.abl.es

Do you want to know how to measure DNA contour lengths using ImageJ?  Perhaps you want to stain a C. Elegans embryo for imaging?  Or possibly, you might want to test whether or not you have gotten an immune response using ELISA? Martin … Continue reading

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Jmol goes JavaScript

About 10 years ago, I turned the Jmol project over to a series of fantastic lead developers (Jmol programmers regenerate in different bodies just like Doctor Who does).  Since then, the aspect of the new work on Jmol that has … Continue reading

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Octopus – A cool open source TDDFT code

I just found out about Octopus, a quantum mechanics package that does time-dependent density functional theory (TDDFT) calculations using pseudopotential approximations. It works in parallel using MPI and OpenMP and scales to tens of thousands of processors. It also has … Continue reading

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PhD Comics tackles Open Access

Fantastic comic / video by Jorge Cham on Open Access over at PhD Comics: www.phdcomics.com/comics.php?f=1533 The voices behind the video are Jonathan Eisen and Nick Shockey (director of the Right to Research Coalition), and the discussion covers the insanity of … Continue reading

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Data visualization and Digital Research tools

Two new collections of tools that may be of interest to the OpenScience community.  Not everything on these lists is Open Source, but many of the visualization and research tools look to be very useful.   Hat tip to Eric … Continue reading

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Computational Chemistry Highlights

Computational Chemistry Highlights (CCH) is an interesting new overlay journal that identifies important contributions to the field of computational and theoretical chemistry published within the last 1-2 years.  I’m involved in this particular overlay journal – I’ll be concentrating on recent developments … Continue reading

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Advice to junior faculty who want to do get promoted doing Open Science

I recently sent some advice to a colleague who is coming up for tenure at another university.  He’s quite well known in the Open Science community and is trying to figure out how best to make the case to his … Continue reading

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An informal definition of OpenScience

Over at the open-science mailing list at okfn.org, Michael Nielsen just posted a great “informal” definition of open science:   Open science is the idea that scientific knowledge of all kinds should be openly shared as early as is practical … Continue reading

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Posted in open science, Science | Tagged , | 7 Comments