Adventures in Signal Processing and Open Science

Tag: open access research papers

Magni: A Python Package for Compressive Sampling and Reconstruction of Atomic Force Microscopy Images

Our new software metapaper Magni: A Python Package for Compressive Sampling and Reconstruction of Atomic Force Microscopy Images has just been published in Journal of Open Research Software. The paper describes our new software package Magni:

Magni is an open source Python package that embraces compressed sensing and Atomic Force Microscopy (AFM) imaging techniques. It provides AFM-specific functionality for undersampling and reconstructing images from AFM equipment and thereby accelerating the acquisition of AFM images. Magni also provides researchers in compressed sensing with a selection of algorithms for reconstructing undersampled general images, and offers a consistent and rigorous way to efficiently evaluate the researchers own developed reconstruction algorithms in terms of phase transitions. The package also serves as a convenient platform for researchers in compressed sensing aiming at obtaining a high degree of reproducibility of their research.

The software itself is on GitHub as well as on Aalborg University’s repository: DOI 10.5278/VBN/MISC/Magni

Go ahead and check it out if you are into compressed sensing or atomic force microscopy. Pull requests welcome if you have ideas.

Rock Your Paper

I noticed a new web site some time ago: It is first and foremost a search engine for open access research papers. You can search for open access papers from lots of different publishers and they aim to be the place to go for open access research.

Their initial motivation is to provide easy access to research to students and researchers from countries that typically cannot afford access to the expensive subscription journals. I talked to Rock Your Paper co-founder Neeraj Mehta about their platform to find out a bit more about it.

Rock Your Paper (RYP) started on October 18th, 2013. It is not the only place to search for open access papers. Other possibilities of course include the publishers’ sites themselves, but this is hard work considering the many different publishers you would have to visit. Another centralised place to search for papers is the Directory of Open Access Journals (DOAJ) where you can search among, at the time of writing, 1,573,847 open access papers. When I spoke to Neeraj in January, RYP was hoping to index 20 million research papers by January 31st. In addition, they provide another layer of service to its users. You can create an account with RYP and save both searches and individual papers so that you can keep track of “what was it I searched for the other day when I found that paper…”

Rock Your Paper is a for-profit startup company that of course hopes to earn money from their services, but they promise that their basic search and access features will remain free for users. This seems very much in line with their initial purpose. They may extend their services along the way with additional features such as formatting, editing and translation which users will need to pay for.

Initially, they are aiming to establish themselves first and foremost as an open access search engine. Later on, they may also extend the platform to let users publish research. They have also approached publishers of subscription-based journals about the possibility of providing discounted access to these, but unfortunately they have not had any luck with this yet.

I think Rock Your Paper sounds like one of many interesting new players in the open access / open science area that will be exciting to follow.

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