Firstly I would like to say, thanks for developing mothur, looks like an incredible resource.
I’m going to preface my questions with the statement that I’m really new to working out how to deal with large sequencing datasets and have been working out how to use mothur - but I am a complete novice!
I have several 18S amplicon Pac Bio SMRT cell sequencing sets that I’ve been running through MG-RAST as a quick way to see what is there. However, I would really like to do some chimera detection and maybe have a go at analyzing my data without MG-RAST. I was wondering what your recommendations might be, perhaps someone has some experience of Pac Bio reads. I was thinking of following the 16S 454 SOP but any input would be greatly appreciated! I’m also happy to share my experience regarding the quality of data I’m getting out of the SMRT cell sequencing process.
Thanks for any help you may be able to give me,