This pipeline has been vastly improved via the new RESCRIPt plugin. Which you can check out via the link below. We hope the process of constructing your own reference sequence database (e.g. SILVA) will be far less onerous.
Click here to see the original documentation
I just wanted to let everyone be aware that I’ve hobbled together a simple pipeline for constructing classifiers based on the SILVA 138 release. I’ve been working on this as time permits, so I apologize in advance for the short-cuts and clunkiness of my approach, but I figured this would be something useful for the community. At least in the short-term .
Anyway, the files will be temporarily available here, until I can find a longer-term hosting solution:
Do not be surprised if the suddenly disappear . If they do, I hope the pipeline I’ve linked above should be sufficient.
The classifiers, and the reference sequences and taxonomy files used to build them, are available too. Note: I’ve made classifiers with and without the species labels. This not only helps to reduce the size of the classifiers, but also allows for faster classification as there is less rank information. This may be ideal for those that typically do not trust species-level taxonomy. Either-way, use what works best for you.
Please let me know if these are useful. Otherwise happy -ing my friends!