CountESS: Count-based Experiment Scoring and Statistics
summary
A visual Python toolkit called CountESS implements configurable map/reduce pipelines with a Tkinter GUI and CLI, plugin entry points, and a minimap2 wrapper for per-row variant diffs. It processes real datasets (example run: 163 FASTQ files, ~350 million sequences ≈ 66 billion bases), does live previews, computes counts and log‑based scores, writes CSV outputs, runs multi‑core on one machine today and is designed to scale to distributed backends while keeping statistics and reproducibility explicit.
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chapters (16)
- 0:00Start
- 1:42Content Warnings
- 4:03Cell Biology
- 4:49The Human Genome
- 5:34Nanopore Electrophoresis
- 6:49Gene Names
- 7:51Gene Variants
- 10:07Cancer
- 12:27Saturation Genome Editing
- 15:28Counting Things
- 16:38The Actual Problem
- 17:23Spreadsheets
- 18:08Programming Languages
- 22:45CountESS-Plugins-2
- 24:06CountESS-Plugins-4 Your plugin's pyproject.toml
- 30:21Questions
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