update config docs with rerun

alsmith151 · Feb 1, 2024 · f0dfffa · f0dfffa
1 parent 70467d8
commit f0dfffa
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diff --git a/docs/pipeline.md b/docs/pipeline.md
@@ -10,6 +10,10 @@ The following command will generate the working directory and configuration file
 
 ```bash
 seqnado-config chip
+
+# options 
+-r, --rerun # Re-run the config
+-g, --genome [dm6|hg19|hg38|hg38_dm6|hg38_mm39|hg38_spikein|mm10|mm39|other] # Genome to use if genome preset is configured
 ```
 
 You should get somthing like this: