Skills › Scientific Agent Skills › scanpy › pipeline_config.json
pipeline_config.json
19 lines · skills/scanpy/assets/pipeline_config.json at 5f2bc03
1{
2 "min_genes": 200,
3 "max_genes": 6000,
4 "min_cells": 3,
5 "mt_threshold": 10,
6 "scrublet": true,
7 "target_sum": 10000,
8 "n_top_genes": 2000,
9 "hvg_flavor": "seurat",
10 "scale": false,
11 "regress_out": null,
12 "n_pcs": 40,
13 "n_neighbors": 15,
14 "resolution": 0.5,
15 "batch_key": null,
16 "batch_method": "harmony",
17 "marker_method": "wilcoxon",
18 "skip_markers": false
19}