Closed gorliver closed 6 months ago
Hi gorliver,
Yes, you can run SPLASH on datasets of anysize to obtain SNPs. One potential approach for identifying SNPs is to run the SPLASH_extendor_classification.R
script from the repository and then looking at those anchors classified as Base_pair_change_
(these are anchors whose target sequence diversity could be explain by single base pair changes (i.e., SNPs or mutations). The number after _
gives you the number of base pairs that are different between the top two targets of the anchor. Hope this helps you.
Sounds great! Definitely will try it.
The concept is quick attracting. I wonder is it possible to call SNPs from a large population? If so, would you mind share the pipeline?