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We have developed an enhanced version of MAQ called Cloud-MAQ. It outperforms MAQ in terms of runtime. For 120 million (33 base, Illumina) sequence reads on a single core, MAQ took 8hrs for reference assembly. While Cloud-MAQ on the same data set took 53mins using 4 cores. I can share more information and the software for anybody who is interested in trying our version...
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Moved this to its own thread as it is clearly not a package available for use today, but definitely worthy of discussion.
Link to amazon image so I can try it?
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Could you post a link to the software? Is it free?Originally posted by geschickten View PostComment
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I will post the link soon. We are in the last leg of quality testing...thank youComment
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I also would like a test on it. ThanksComment
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good new
post the linker,pleaseComment
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We will post the link on our website soon after holidays. Thank you and Happy Holidays to you all....Comment
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I am pleased to announce that Cloud-MAQ is available for download. For enthusiasts please go to http://www.geschickten.com/PaCGeE.html.
Please remember that your suggestions and feedback are always appreciated. Thank you.
PrahaladComment
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Is the MAQ you created based on the source code of MAQ found on sourceforge.net? Are you going to release the source code?Originally posted by geschickten View PostComment
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I've yet to run it;
but from what I have seen from a short analysis of the contained python-c apps, this looks like a wrapper-approach for the usual maq map step to utilize the hadoop storage, map and reduce algorithms.
But that's just a quick take, and I assume that since its a requirement to have maq 0.6.8 (why not the latest 0.7.x???) and maqview installed, that this will likely stay closed source - otherwise all the hassle with the download, like asking for a phonenumber+email wouldn't have been necessary.
These are my 5 cents, but I'd like to be proven wrong,
Best
-JonathanComment
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nilshomer & Jonathan
I know its a pain to pen a few details before you download any softwareand I am sorry for that; well Jonathan you are partially right; I mean what we have is a wrapper and we have not modified the source of MAQ; The reason we suggest 0.6.8 is because MAQ 0.7.x is a little inconsistent and there are issues with MAQVIEW too. Hence we restricted ourselves to 0.6.8; but that will change in future. Thank you.
PrahaladComment
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Are you distributing MAQ with your code or do you have to download it yourself?Originally posted by geschickten View PostComment
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We are not distributing MAQ; you have to download it from sourceforge. The README in the distribution has all the details. Thanks
-pComment
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Hi,
does it still works with MAQ 0.6.8 ?
I'm new to the field, and I wanted to run it on IBM clusters. This seems to be the solution. is source code available?
does anyone know if the results are different than just running MAQ ?Comment
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