cytomining / cytomining/CytoTable

Extract or somehow store data from CellProfiler `experiment` tables in CytoTable output

Open
#203 0 comments 0 reactions 0 assignees View on GitHub
enhancement
Dominant language
Python
Stars
21
Forks
6
Avg merge
2d 3h
Merged PRs (30d)
6

Description

This issue comes from a question @jenna-tomkinson raised about whether CytoTable can store `experiment` table data somehow. CytoTable doesn't currently include this data in output. Minor note: some testing datasets don't appear to store this data, so it would need to be a possibly optional inclusion (allowing for processing without breaking when implemented).

Contributor guide

Open the contributing guide

Research direction

Start by tracing how CytoTable reads CellProfiler outputs and builds its output data, then investigate how experiment tables are represented in available datasets. Define optional handling for datasets that lack this data. Done means experiment data is included when present without breaking processing when it is absent.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
data
Issue type
Feature
Difficulty
4/5
Estimated time
3-5 days
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
30/100

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