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custom gene lists
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bio-la committed Apr 26, 2024
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11 changes: 5 additions & 6 deletions docs/usage/gene_list_format.md
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Expand Up @@ -78,18 +78,17 @@ If the group name is not spelled correctly, the action will fail. See [The secti
The human custom genelist file can be supplied by the user in the workflows configuration files:

1. **Ingest workflow**

pipeline_ingest config file: (pipeline.yml)
By customizing the following parameters

Supply the gene list by customizing the following parameter

```yaml
custom_genes_file: resources/qc_genelist_1.0.csv
```
1. **Preprocess workflow**
pipeline_preprocess config file: (pipeline.yml)
By customizing the following parameter
2. **Preprocess workflow** pipeline_preprocess config file: (pipeline.yml)
Supply the gene list by customizing the following parameter
```yaml
exclude_file: resources/qc_genelist_1.0.csv
```
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