1

I have built a software that handles protein clustering data in specific format. It is able to draw several plots on that basis along with many other analyses. It has more options than its existing competitor. Should I just try to get it published as a software/technical issue, or try some
case study data (research work on a logical data) produced by the software
+
the software,
in a better journal?

  • That's a pretty domain-specific question. I am not sure whether academia.SE is the right place for this. – xLeitix Aug 21 '14 at 7:07
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In my discipline (political science), one would typically do both. Write an applied article that uses the software for an actual research project and submit that to a substantive journal. Then, separately, describe the software and write it up for a software journal (e.g., Journal of Statistical Software, R Journal, etc.).

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In my field (Bioinformatics) you would need to test that the software works as intended. Many researchers use simulated data to evaluate performance under controlled conditions, and then apply the method to a case study to demonstrate its validity with real data. Although not explicitly required for (most?) journals, if I was reviewing your paper I would most likely request that you demonstrate its utility with real data. That, however, does not require a lengthly study, any appropriate dataset would suffice. That being said, if you include some real data some referees may ask you that you demonstrate your software in a broader set of (real) conditions. That has happened to me before- referees are insatiable :-)

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