A working release for a paper on fox helminths (see https://github.com/VictorHJD/AA_Fox/). Many of the bugs still need to be fixed.
This version has large changes in the data-architecture: it uses a matrix structure each for the reverse and forward ASV x sample sorted sequence files. This helps further development being more intuitive than the previous (depreciated PairdReadFile specially created object type) data structure.
This is working flawlessly with the code as in the above analysis repository. Many features (sbsetting, pipeline tracking, see open issues) still have to be fixed.