Pitfalls

A trustworthy backend teaches its own failure modes. Image-based profiling has a handful of mistakes that produce a confident, plausible-looking number from data that cannot support it, and none of them raise an error. This tier collects them: what the symptom looks like, and how mantispy lets you detect it.

• Pseudoreplication. Symptom: a treatment looks highly significant because every cell in a well is counted as an independent replicate, inflating the sample size a hundredfold. Fix: aggregate to the well (or plate) first with tl.aggregate, and treat wells, not cells, as the unit of replication.

The unit-of-replication and p-value-floor pitfalls are worked through in full in Which measurements moved.