Community members: your publication on arXiv.org!

Community experts, we’re pleased to inform you that you’re co-authors of the article titled OMICtools: a community-driven search engine for biological data analysis. The preprint version of this article has been assigned the permanent arXiv identifier 1707.03659 and is available on arXiv.org.

This publication gives us the opportunity to thank all the OMICtools biocurators and users for their helpful collaboration in providing high-quality and updated information on bioinformatics tools.

omictools-features-publication

Overview of the collaborative functionality offers on the OMICtools platform

Here’s the abstract: with high-throughput biotechnologies generating unprecedented quantities of data, researchers are faced with the challenge of locating and comparing an exponentially growing number of programs and websites dedicated to computational biology, in order to maximize the potential of their data.

OMICtools is designed to meet this need with its open-access search engine offering an easy means of locating the right tools corresponding to each researcher and their specific biological data analyses. The OMICtools website centralizes more than 18,500 software tools and databases, manually classified, by a team of biocurators including many scientific experts. Key information, a direct link, and access to discussions and evaluations by the biomedical community are provided for each tool. Anyone can join the OMICtools community and create a profile page, to share their expertise and comment on tools. In addition, developers can directly upload their code versions which are registered for identification and citation in scientific publications, improving research traceability.

The OMICtools community links thousands of life scientists and developers worldwide, who use this bioinformatics platform to accelerate their projects and biological data analyses.

Community opinion: optimize your search experience

Firstly, a big thanks to all of you who participated in our survey!

A few weeks ago, we sent out a survey so we can better meet your needs and improve your search experience on OMICtools. Thanks to all of the 78 participants who took part in this survey, your feedback is really important to us.

We are happy to report here the positive results of this survey. All of you were satisfied regarding the relevance of the results you get with the OMICtools search engine, with 59% judging the results as good and 31% as great.

Participants also reported that for 55% of you find the OMICtools search engine and website easy to use and innovative, and 43% consider it satisfactory. Only 2% (1 person) encountered difficulties using it (we are always happy to answer any questions right away about any difficulties you encounter).

relevance-omictools

 

We listed six criteria used in our ranking algorithm (see the previous post OMICtools: upgrading your search experience for more details) which we use to define the order the tools appear in your search results, and we asked you to order them by importance. Your ranking from most important to least important (left to right) is:

ranking-omictools

With tool quality rating being of primary importance for users – make sure you rate any tools you yourself use, so others can benefit from the community’s experience. We also asked you to give your opinion on the choice of our new additional filters:

filters-criteria-omictools

Your answers have helped us a lot. The new filters are now available!

You can now use them to specify your needs on the category pages and to sort the search engine results by computer skills, operating system (os), programming language, technology and/or software type.

Once again, thanks for completing this survey! Your feedback on filters is always welcome.

Collaborations for development of bioinformatics tools

In the era of big data, international collaborations are crucial for data sharing and bioinformatics tools engineering. Common projects between people working at different locations worldwide favors the exchange of expertise and development of new ideas. It allows investment of the time and effort required to develop good quality programs as well as benefits from shared funding resources.

This interactive chord diagram shows the collaborations between the countries that have led to the creation of a new bioinformatics tool among the thousands within the OMICtools repository. Mouseover to focus on collaboration from one of the top countries. The thickness of the curve visualizes the numbers of publications (built with D3 : https://d3js.org/).