Hello everyone, I am the beginner for this area of study, and I have no one to ask these simple questions.
I want to identify organism using NGS sequencing. I read from tutorial and I known that I have to make contigs and filter unusual sequences out. Then, compare filtered sequence with database (classify command).
But, There are some unclear topics forme.
- Is it true for my work flow? any suggestions? What are the steps that I should do? Does pre.cluster need for my work?
- Can I use other databases in Mothur?
- If I can use other databases, where can I find .tax file? How to determine taxon in classify command if I use other databases?
- I already tried to align with downloaded database (not SILVA), but the muthur system told me that sequences not align. I aligned them in BioEdit and saved into .fasta, but, when I tried to align again, system cannot open that file. How to solve it?
Thank you very much.