Carlus Deneke

Has this issue been fixed? Cheers.

One workaround would be to map the long reads with a suitable mapper (e.g. minimap2) and then use the `--bam` input option in snippy. Have not tried it so far...

I found that snpEff=5.0 also works but snpEff=5.1 does NOT

The error message points to a incompatible R version. Which version are you using? The data was built with R version 3.4.4. Also what happens when you just try `forest

Unfortunately, ranger is not forward compatible. I trained the toy examples and real datasets on ranger version 0.3. When I find time I'll try to re-train the data sets with...

Hi and thanks for your interest in Paprbag. Hmm, in R you typically get such errors when you supply only a single datum (e.g. a single read in this case)...

My collaborator has a curated list of proteins collected from various resources. Of course I tried (hard) to map them back to the original gene sequences, e.g. via a blast...