More consistent argument names and updated README. Some changes still…

… pending because of accidental stash.
complextissue · Sep 13, 2024 · 638b22e · 638b22e
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diff --git a/README.md b/README.md
@@ -96,7 +96,7 @@ While the outputs are roughly identical for the same configuration, there remain
 - Additional features:
   - When `ignore_transcript_version` is set, the transcript version will not only be scrapped from the quantization file but also from the provided transcript to gene mapping.
   - When `biotype_filter` is set, all transcripts that do not contain any of the provided biotypes will be removed prior to all other steps.
-  - When `save_path` is configured, a count matrix will be saved as a .csv file.
+  - When `output_path` is configured, a count matrix will be saved as a .csv file.
 
 ## Building the documentation locally