I posted 17 days ago to get help with creating a custom database, and I didn’t get a response, so I thought I would break it down. Could someone give me an example of what the align file and the taxonomy files are supposed to look like after running the following code from the README (Before the R code).(README for the SILVA v138 reference files)
#generate alignment file
mv silva.full_v138.good.pcr.pick.fasta silva.nr_v138.align
#generate taxonomy file
grep ‘>’ silva.nr_v138.align | cut -f1,3 | cut -f2 -d’>’ > silva.nr_v138.full
There are no examples for any of these files, so I don’t know where I am going wrong, but I don’t think either of these files look correct after following the steps provided. Thanks.
For context, I am trying to create a LSU Silva database for 23S alignment.