Rathanin-github

Hi Katherine Thank you so much for your solution. I can fix my problem by: conda create --name snippy-env conda install --name snippy-env -c bioconda/label/cf201901 vt==2015.11.10 conda install --name snippy-env...

After running snippy using .gbk as reference, I run snippy core (snippy-core --ref K9.gb samples*. Then I run run gubbin with core.full.aln (output file from snippy-core). I wounder how can...

Dear @tseemann Thanks for suggestion. I am working on it. I will update you after finishing my analysis.

Here is the grep -c of N, n and - in core.full.aln and clean.full.aln: (base) nc-lab@DORIM2019:/mnt/c/Rathanin/test5/snippybp$ grep -c "N" core.full.aln 113150 (base) nc-lab@DORIM2019:/mnt/c/Rathanin/test5/snippybp$ grep -c "n" core.full.aln 28940 (base) nc-lab@DORIM2019:/mnt/c/Rathanin/test5/snippybp$...

Hi @tseemann Thanks you for quick response and sorry for posting to the wrong repo.