Category Archives: Software

Small victories

My previous post on Wildlife Acoustics attracted the attention of the owner of the company, Ian Agranat. Although Agranat didn’t agree with my critique, at least it seems my post was enough to make some changes in WA: They published the command-line code … Continue reading

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Review of the SM2 and SM3 by Wildlife Acoustics

(Updated on 15 Jun to add the problem of uneven recording length) I’ve been working with automated digital audio recorders for more than a decade. Back in 2003, I started recording at the tropical forests of Puerto Rico with a … Continue reading

Posted in Bioacoustics, Science, Sensors, Software, Soundscape | 6 Comments

Updated version of the soundecology package for R

A few weeks ago I published a new R package, soundecology. After spending the three days before submission fixing bugs, testing and trying to make sure the code fits the specifications, you realize you missed something. In this case I … Continue reading

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New R package of soundscape ecology indices

After months of development, my package of soundscape indices is available at CRAN! The long process included translating methods sections from papers to code, Matlab scripts to R, as well as learning how to code all the metadata that R … Continue reading

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Mendeley sells out; I’m moving to Zotero

“The empire acquires the rebel alliance.” – a very common response in Twitter with the news of Elsevier buying Mendeley. Yes, this is more on the side of poetic license than reality, but not by far. If you haven’t heard, … Continue reading

Posted in Open Science, Papers, Science, Software | 11 Comments

SeaBASS and career paths

A couple of weeks ago I participated in SeaBASS 2012, the BioAcoustics Summer School, a week-long course on marine bioacoustics that was offered for the second time at Penn State University. The course was sponsored by the Applied Research Laboratory at … Continue reading

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I made the mistake of paying for Microsoft Office

My university, Purdue, has been offering discounted licenses of several software products. Some of these licenses carried restrictions like having to delete it after you graduate. This one is annoying but it makes sense, after all the idea is to … Continue reading

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New paper on our software to manage sound archives

The paper describing our software Pumilio has just been published in the Bulletin of the Ecological Society of America. Pumilio is a web-based sound archive and analysis tool. Pumilio was created out of necessity. Our lab was collecting a lot of sound data … Continue reading

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Publish your computer code: it is good enough

I just found this column in Nature discussing the need for scientists to publish the code they used. I’m still amazed that this is not getting more attention. If a proper-written Methods section is mandatory in a paper, why not … Continue reading

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“Data, data everywhere”

I just found a special report from The Economist on data, “Data, data everywhere.” The report deals, in several articles, on the new trend of massive amounts of data available today. They cover mostly the business implications, but also scientific … Continue reading

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