There is an iterator which gives logical arrays used to index the COO sparse posterior object, for the purposes of breaking it up into "independent" chunks for MCKP estimation. (This is just achieved by having all entries for a given gene within a single chunk, since each gene is independent of every other during MCKP estimation.)
Previously, it was implemented as a generator which would yield a logical array. The implementation was a bit clumsy.
Now, it is implemented as a simple list, computed as fast as I can figure. The speedup for large posterior COO objects is at least a factor of 100. This is very important, since for large datasets it was taking quite a long time in some cases, like on the order of 10 minutes or more, it seemed.
There is an iterator which gives logical arrays used to index the COO sparse posterior object, for the purposes of breaking it up into "independent" chunks for MCKP estimation. (This is just achieved by having all entries for a given gene within a single chunk, since each gene is independent of every other during MCKP estimation.)
Previously, it was implemented as a generator which would
yielda logical array. The implementation was a bit clumsy.Now, it is implemented as a simple list, computed as fast as I can figure. The speedup for large posterior COO objects is at least a factor of 100. This is very important, since for large datasets it was taking quite a long time in some cases, like on the order of 10 minutes or more, it seemed.