Exporting functional data with sample information

User Questions
1

Hi,

I have been struggling to find how to export functional data with sample information. Each sample is a separate sam file which I loaded into the Import from Blast dialogue box altogether. I then uploaded the SEED reference database and ran the alignment. My rma output seems to merge all the samples together though, so I effectively have one large pooled sample. Is there a way to export functional information so that I can analyse the data on a per sample basis?

Many thanks,

Beki

2

I do this in the ‘Compare’ view, loading in all the files and then exporting the data to a CSV.

3

Hi Chris, thanks for your reply. Unfortunately my problem is that I have only one rma6 output file after loading multiple sam files into the Import from Blast box and aligning in MEGAN, so I cannot use compare view to look at different samples. I think sample ID information must have been retained in this output file, but I don’t know how/if it is possible to extract it.

4

hii,
Please let me know whether MEGAN perform functional annotation for paired end data.

5

You need to import each file separately, not all together at the same time. Then each SAM file will give rise to a different RMA file and you can then open the RMA files together using the Compare dialog.