I am relatively new to Mothur. I am working with 454 reads (16S amplicons) and I want to normalize my data with subsampling and analyze it with Metastasts, for wich I am triying to generate a shared file.
I have already processed my data generating independent files for each sample after the splitting, so I have the following files for each sample:
My problem is that I donÂ´t know how to generate a shared file with this files. I also tried to start again for processing all samples together. But I have samples in two different libraries with repeated barcodes among the two libraries. So I canÂ´t join the two fasta files and follow the 454 SOP protocol for trimming all samples at once.
Does anyone have any suggestions about how generate a shared file for subsampling this data?
Thanks you in advance,