I cannot find a complete description of the alignment file format output by the GEM mapper. I am aware that conversion to SAM is straightforward, though not without loss of information. That's not what I'm after; I actually want a description of the GEM format.
The closest thing I can find is a partial description in the documentation of taxMaps, a pipeline which uses GEM.
Can anyone point me towards a complete description, or provide one here? I've been searching for a while without any luck.
Any assistance would be appreciated.
The closest thing I can find is a partial description in the documentation of taxMaps, a pipeline which uses GEM.
Can anyone point me towards a complete description, or provide one here? I've been searching for a while without any luck.
Any assistance would be appreciated.