Archive for the 'Reference management' Category

Three tips to increase your chances of pleasing a journal editor

Sunday, July 27th, 2008

Recently I met with someone who is the editor for one of the top journals in my field. We discussed what would increase your chances of pleasing a journal editor. He gave me three clear pointers that I thought would be interesting to the readership here. But, I also think I’m going to try a different method to get them to you: mail. There are about 2000 RSS subscribers, and only a few dozen email subscribers. I think it’s those subscribers show a lot of commit to what I have to say here and it’s about right that they get extra content. If you use RSS over email because you find it more convenient, then my apologies. You can always subscribe to get the content, then unsubscribe, although I plan to decouple the two sources and prepare extra content that goes to the mail subscribers only in the future.

As Jason calacanis and Nova Spivack put it:

Why have I been doing so much more Twining than blogging and social networking? First of all, I’m not interested in having a conversation with the entire general public, or ever being an A-List blogger, or interacting with networks of random strangers. What I want is to efficiently participate in many different specific groups and communities around particular interests and relationships I have.

I still think that ap.com could be a great community where we share really effective tips (this one email is probably one of these). Just a quick reminder that posting is open to anyone who has anything to say (posts are reviewed). There is a post describing how to make a post. And of course, the comments are open.

EDIT: Since lots of RSS subscribers felt alienated, I have added the content here. I hope you understand why I thought it might be sensible to keep it to a reduded audience. The error in my logic was that email subscribers show more commitment: in fact RSS subscribers think the technology is superior and that’s why they do not subscribe using email.

As promised in my blog post, here are three tips to increase your
chances of pleasing a journal editor (and getting your paper published).

(1) Don’t take no for an answer. This editor told me that in many cases the reviews were not completely damaging, but many authors assumed that the paper was beyond repair and never resubmitted. Sometimes, even though you didn’t get a ‘revise and resubmit’, you can write back to the editor and say that you do not agree with some of the reviewers’ points, and that you have fixed the paper. Note that you were not invited to resubmit, but you are doing it anyway. Sometimes the editor will agree with your point and keep the process going.

This little sneaky tactic can save you a lot of time waiting for another journal to start the process from scratch, not to mention psychological wear-and-tear taking rejections.

Note: my editor in question said he would be more than happy to reevaluate such cases, but he may be an exception.

(2) Write it clearly. In a world where everybody rushes papers for publication, a well-written paper feels like fresh air. How do you know your paper is well-written? Leave it alone for a week. If you come back to it and you cannot understand your own point at first read, rewrite. Use your lay-man friends, or people from a different discipline, as testers.

Another trick that I’ve seen good writers do is to use very large fonts so they concentrate on one paragraph at a time (one screen full of large fonts). They move to the next screen only when they are totally satisfied with their writing. This often involves rewriting each sentence a few times, and shortening it.

(3) Don’t resubmit in a week. It shows disrespect for the entire review process. If the reviewers and editor took a few hours of their time to make your paper better, by all means do not disregard the changes they propose. Rarely you can address all suggestions in just one week.

What happens when you take an extraordinarily large time to resubmit? I thought it’d be catastrophic, but this editor concretely thought that this is not an issue. Sometimes life gets in the way. By all means resubmit even if you think your reviews have forgotten about you. They probably have anyway even if you submit in a snap :)

Hope this helps!

-Jose

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CiteULike upgraded: new team-oriented features

Monday, September 24th, 2007

Kevin from CiteULike wrote in to let us know that they introduced a number of new features. CiteULike logoBeside some new user-oriented features (e.g. an editable profile and the possibility to create a blog), the most interesting additions are those that extend group functionality.

Using an online reference manager to share a reference pool among members of a team or project is a brilliant idea, but the previous implementation of groups in CiteULike was pretty poor. The recent upgrade addresses some issues of the previous version and introduces interesting new functionality that should make team-based use of a reference pool snappier and more usable.

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Quicker references with Google Scholar

Friday, June 29th, 2007

This post is an ode to Google Scholar (GS). GS has a major advantage against expensive institution only academic search engines in that is free, which makes services indispensable to independent scholars wishing to get some access to research literature when they don’t have an institutional subscription. However, even though I personally have institutional access to indexing services like Web of Science and Scopus, I still prefer GS for the majority of my searches, and in this post I will explain why.

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On the need for replications

Thursday, May 24th, 2007

Disclaimer: this post may be relevant only for social sciences/psychology people. I found a nice thread on the Judgment and decision making (JDM) mailing list on the need for replications.

Lots of good posts on an interesting discussion. The mainstream view is that we simply don’t run enough replications because they are harder to get published. This leads to studies showing that replications are actually very hard, with only a small percentage (about 40% in the social sciences) being successful.  Robyn Dawes seems to thing that replications are overrated:

the “real” scientists do is to futch around until they get it “right.” The multiple study requirement just adds “first and second and third” studies, thereby wasting space and time.

There are comments on Increasing the Percentage of Papers Replicated, and some nice book recommendations on experimenter bias.

 

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comparing different pdf readers

Wednesday, May 2nd, 2007

There is a nice pdf reader comparison  at donationcoder.com. Since most academics rely on pdf quite a lot, choosing the right tool may save a lot of time and frustration.

The idea here is to have a tool that opens up as fast as possible, uses as little memory as possible, and lets you move around the pdf conveniently with the best rendering quality.

Some of the tools are obscure (great finds!). Most of them are tiny compared to the standard Adobe Reader, but do suffer quality- and feature-wise.

Adobe Reader 8 has the nicest quality of text, it is beautifully crisp; but even with the speed increase of version 8, the program is still something of a monster.

Foxit is very well known as the freeware alternative, it is not the smallest application of those tested, but it does use the least memory; however, the quality of its output is by far the worst!

Adobe’s new comer Digital Edition is still in beta, and has some annoyances (no custom install, all files added to library) but it is a fraction of the size of its big brother. Sadly the render quality does suffer; though not as poor as Foxit all the other applications tested produced more legible text.

 

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Comparison of academic search engines and bibliographic software

Sunday, March 25th, 2007

The “beyond my mind” blog has a post comparing different academic search engines. The author also describes his search strategy:

The way I search for scientific articles is pretty simple. Say I have a problem to solve that was assigned by some course teachers or my research supervisor. I mark some keywords and Google for them. If I don’t find any relevant information I use combination of those keywords or use alternative keywords adapted from the search results. Once I start getting some keywords that produce relevant results in Google, I pass it to Google Scholar. Sometimes I go to some other subject specific search engines to search using those keywords

I use Web of Science, because it can track cited articles. This is also present in google scholar, but somehow I don’t find it as reliable. I tend to sort by citations, and pay attention to the top few papers only. I guess if most people do like me, there must be a snowball effect going on here, with a ‘rich gets richer’ situation.

Search engines are measured using precision and recall. This is of course relevant, but sometimes more mundane measures are interesting too. The basic unit for productivity evaluating search engines should be something like “time (or clicks) needed to get both the full text and the reference to your hard drive”. Here, small inprovements in usability like going from 21 to 16 clicks to achieve your goal can save quite a lot of time, since we academics use search services so often.

 

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Soft peer review? Social software and distributed scientific evaluation

Wednesday, February 21st, 2007
For an extended version of this post, see also:
D. Taraborelli (2008), Soft peer review. Social software and distributed scientific evaluation, Proceedings of the 8th International Conference on the Design of Cooperative Systems (COOP 08), Carry-Le-Rouet, France, May 20-23, 2008

Online reference managers are extraordinary productivity tools, but it would be a mistake to take this as their primary interest for the academic community. As it is often the case for social software services, online reference managers are becoming powerful and costless solutions to collect large sets of metadata, in this case collaborative metadata on scientific literature. connotea popular tagsTaken at the individual level, such metadata (i.e. tags and ratings added by individual users) are hardly of interest, but on a large scale I suspect they will provide information capable of outperforming more traditional evaluation processes in terms of coverage, speed and efficiency. Collaborative metadata cannot offer the same guarantees as standard selection processes (insofar as they do not rely on experts’ reviews and are less immune to biases and manipulations). However, they are an interesting solution for producing evaluative representations of scientific content on a large scale.

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On metadata, indexing, and mucking around with PDFs

Monday, February 19th, 2007

How much time do academics waste chasing down references and managing them right now? The ceremony of fishing, saving, organizing and inserting references may be taking a significant percentage in any academic’s time allocation table.

James Howison & Abby Goodrum make a very good point about how little use we currently make of metadata. Why music and images gets tagged, but not academic papers? It seems that you can do a search by artist name easily, but not by author name when using pdfs (not natively at least)In my case, I try to make up a filename that contains all the key terms, author names, etc that I anticipate I may need. Then, I index the filenames only (not the full text) using a desktop search program (locate 3.0).  current workflow for reference managementThis is definitely a lot worse than the way my music is organized my music and I didn’t dedicate much time to it since it already came tagged or was easily mass-tagged using a program that talks to amazon or CDDB.  I wonder how we got to the point that even after  dedicating ten  more times more resources to organizing references than music they are still harder to find and handle.

Howison ventures to say that the experience of managing mp3s is far more fluid than managing any other documents, certainly more than managing pictures, word documents, and of course, academic papers in PDF form. This is just because music files have embedded metadata that travel with the media, while academic papers don’t.

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Meet your academic neighbours in CiteULike

Wednesday, December 20th, 2006

One of the good (potentially great) things about on-line reference sites  is that it can put you in touch with those academics who share interests with you. This particulary true with CiteULike, which by design encourages co-operation, for example, it allows you to see who else shares a reference in your library.

The link belows is a tool which works out which users share the most articles in your CiteULike collection, and you can then cherry pick interesting articles from their collections.

I first found this on the shadow blog, who turned out to one of my neighbours!

The link is here:

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Online reference management (part 2): going social

Friday, December 1st, 2006

In a previous post I presented some considerations on the impact of online reference management (ORM) tools on one’s productivity. Graph of a Connotea user's items from HubLogI haven’t mentioned yet another major advantage of using social software for managing references: the possibility of using dynamically generated feeds to track things you are interested in.

We already reviewed some potential uses of feeds for academic purposes (read more from shane and jose). In this article I focus on the use of flexible feeds in ORM tools as a strategy to discover recent and valuable references.
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Zotero - the reference manager of the future?

Monday, November 6th, 2006

The recent launch of Zotero has been deservedly causing a lot excitement in the world of academic techno early adopters. It shows early promise, and there seems to some serious support behind its development, with a full time developer working on it.

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Online reference management (part 1): Availability

Tuesday, October 3rd, 2006

Externalization. Distributing workload across a number of nifty, personalized Web-services: that’s the mantra of Web 2.0 advocates. Although I tend to be quite skeptical about this kind of marketing, there are a few cases in which a Web-based tool can radically change one’s work habits. In the case of academic work, online reference management is one of these happy exceptions.

This post is the first in a series advocating in favor of free online reference management services (such as CiteULike or Connotea) as solutions that are likely to substantially improve one’s productivity (whether or not you qualify as a geek).

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