tsne-embedding - contigs have no coordinates
Hello,
I've used mge-cluster to create a 2D TSNE-embedding of roughly 8,000 closed plasmid sequences within the K. pneumoniae taxa. In the model results, I am presented with about 300 contigs that have no TSNE coordinates, and its standard cluster is listed as "-". From your documentation, "-1" are those that cannot be assigned a standard cluster with any confidence, but those still have TSNE coordinates. How do I interpret contigs that are "-" and have no coordinates?
Cheers for any guidance!