<div dir="ltr"><p>Hello John, </p><p>By the by, khmer is no longer my primary project as I am now the Community Engineer for the Common Workflow Language community. I've taken the liberty of CCing the khmer discussion list. My responses are below:</p><p dir="ltr">On Fri, Nov 20, 2015, 21:49 John Cornelius <<a href="mailto:jcornel3@asu.edu" target="_blank">jcornel3@asu.edu</a>> wrote:<br></p><div class="gmail_quote"><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Hi Michael! Quick question, I was wondering if/when (I saw this mentioned in the manual) khmer would support output of normalization as a FASTQ when taking FASTQ as input?</div></blockquote><div><br></div><div>Yes, for FASTQ input khmer 2.0 outputs FASTQ.<br></div><div> </div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">I'd like to use Transrate on some assembled transcriptomes however, for their read based analysis they require FASTQ read input. I can use the non-normalized reads to align against the assembled transcriptomes however, this makes the analysis take a lot longer due to the large volume of data I have.</div></blockquote><div><br></div><div>It still might be a good idea to give Transrate all the raw reads. I've CC'd Richard Smith-Unna for clarification.</div><div> </div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Anyway, just wondering. Enjoy Romania!</div></blockquote><div><br></div><div>Thanks!</div><div> </div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"> </div></blockquote><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"><div><br></div>-- <br><div><div dir="ltr">John Cornelius<br>MCB PhD Candidate<br>Arizona State University<br></div></div>
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