MiModD Blog
Mutation Identification in Model Organism Genomes using Desktop PCs
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You may not be aware of it, but when you installed MiModD, it came with fully functional builds of samtools and bcftools. Their read-for-use executables are in the package bin folder, which you can find by running:
python3 -m MiModD.config
, taking note of the path reported on the first line of output and appending /bin to it.
Feel free to use them for whatever task MiModD does not let you do directly!
So why not just install a regular version of samtools/bcftools? Well, while this may be easy enough for most Linux users, it's a bit harder for non-developers on OS X.