When following the GATK documentation for ASEReadCounter, the established tool for further analysis is MAMBA.
The link for MAMBA is broken and I can't find the program anywhere else.
Does anyone know if its hosted elsewhere?
The source tree is still available on SourceForge and can be downloaded with:
git clone https://git.code.sf.net/p/mambas/mambas mambas-mambas
I didn't try to install, though.
I successfully installed the program using this source tree.
I still cannot find documentation but the help messages will have to do.
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