Dear All,
How can I read these files below?
sampleA.fna
SampleA.tre
SampleA.rarefaction
SampleA.summary
SampleA.csv
I have the Mothur installed in Qiime. what are the appropriate commands to open these files?
Thanks,
Andre
Hi,
most of these files can be opened with a text, excel or calc editor.
fna - is a “fasta nucleic acid” file. It’s a fasta file. Try something like ‘seaview’ or just a simple text editor
tre - is a tree file. It should be in the Newick format http://www.mothur.org/wiki/Tree.shared - try something like ‘figtree’, ‘treeview’ or ‘treeviewx’, as mentioned in the wiki. But I guess you will need the mothur created tree file for a subsequent analysis, like unifrac, instead of creating a visible tree with it
rarefaction - it’s the rarefaction file - take ‘excel’ or ‘calc’ (open office) and generate one of these well known rarefaction curve figures with it
summary - there are different kinds of summary files - try a text editor or excel/calc
csv - comma separated values - there are different csv versions, tab, comma, or semicolon separated - but you can open them with excel, calc or a text editor (http://en.wikipedia.org/wiki/Comma-separated_values)
I hope it helps a bit!
Cheers