I would talk to your service provider (the people doing the actual sequencing) about your problems especially in regards to the phiX.
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Hi everyone,
I go back to Pat Schloss: http://blog.mothur.org/2014/09/11/Wh...nce-matrix%3F/
If you don't de-noise properly (ie. fully overlapped reads), you get too many unique sequences. Hence, you end having a huge matrix downstream.
But what has happened in the field during the last year? Are there improved methods to deal with this problem? MadsAlbertsen, which method do you use?Last edited by fibar; 12-15-2015, 12:39 PM.
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We have been using the UPARSE workflow for some time now and are in general very happy with it (http://drive5.com/uparse/).
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Originally posted by fibar View PostBut what has happened in the field during the last year? Are there improved methods to deal with this problem?
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Primers and barcodes for V1-V2
Hello,
I was wondering whether any of you has sequenced using Illumina primers for V1-V2 region....Does anyone have a list of barcodes I could used? We need to focus on this region, since it is the best approach to identify sp within oral samples. ...
Many thanks
Elisa
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