siuguy
1
Hello, I am new to galaxy, so this question may sound simple…
I am following the 16S analysis tutorial (https://galaxyproject.github.io/training-material/topics/metagenomics/tutorials/mothur-miseq-sop/tutorial.html), but instead of using the Silva V4 fasta file provided ( https://zenodo.org/record/800651/files/silva.v4.fasta), I want to use the latest release os SILVA (138), available from Mothur (https://mothur.org/wiki/silva_reference_files/).
However, when using align.seqs, it shows an error when using SILVA 138, although it works with the V4 FASTA available from that tutorial.
Does anybody know what could be going wrong? Any tips to make align.seqs work using SILVA 138?
Thanks
1 Like
jennaj
2
Hi @siuguy
Here is some help from the Mothur team regarding data extraction and formatting: https://mothur.org/blog/2020/SILVA-v138-reference-files/
I haven’t personally tried it but that is where to start troubleshooting the data you have now versus what the tool authors had success using.
1 Like
Ahmer
3
hi Siuguy, did you manage to do it? if yes please help me out
jennaj
4
Hi @Ahmer Let’s continue in your topic here How to add SILVA_138.2 latets as a reference to align.seqs tool in GALAXY Server? - #2 by jennaj. If you post back a few more details soon, we can try to resolve this before the weekend so you can use the time to process your workflow. 