Dear deying, I can see that you are probably an expert in bioinformatics. But, it is apparent you are not one in software technology. There is nothing wrong in you considering a C# based bioinformatics tool/toolset. But, the reasons you provide are wrong and plain misleading. That, my friend is very irresponsible. Any software in Perl and Java can be easily executed on windows platfrom. Runtime environments - JVM for Java and Perl interpreter for Perl are easily available for windows. Also, if enduser usability was the a concern, one expects that you have a look at Mac systems too. Nevertheless, just say you are looking a C# and .Net just because you would like to explore the possibility. I request you to refrain from making statements which hurt your credibility. Take care.

Boy did he sum it up. You should have checked to see if Java and Perl run on Windows before making those embarassing for you statements.