improving documentation

Gaius-Augustus · Jan 12, 2024 · 3b888cb · 3b888cb
1 parent 46a9b53
commit 3b888cb
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/README.md b/README.md
@@ -999,9 +999,9 @@ BRAKER produces several important output files in the working directory.
 
 -   braker.gtf: Final gene set of BRAKER. This file may contain different contents depending on how you called BRAKER
 
-       * in ETPmode: Final gene set of BRAKER consisting of genes predicted by AUGUSTUS and GeneMark-ETP that were combined and filtered by TSEBRA.
+    * in ETPmode: Final gene set of BRAKER consisting of genes predicted by AUGUSTUS and GeneMark-ETP that were combined and filtered by TSEBRA.
 
-        * otherwise: Union of augustus.hints.gtf and reliable GeneMark-ES/ET/EP predictions (genes fully supported by external evidence). In `--esmode`, this is the union of augustus.ab_initio.gtf and all GeneMark-ES genes. Thus, this set is generally more sensitive (more genes correctly predicted) and can be less specific (more false-positive predictions can be present). This output is not necessarily better than augustus.hints.gtf, and it is not recommended to use it if BRAKER was run in ESmode.
+    * otherwise: Union of augustus.hints.gtf and reliable GeneMark-ES/ET/EP predictions (genes fully supported by external evidence). In `--esmode`, this is the union of augustus.ab_initio.gtf and all GeneMark-ES genes. Thus, this set is generally more sensitive (more genes correctly predicted) and can be less specific (more false-positive predictions can be present). This output is not necessarily better than augustus.hints.gtf, and it is not recommended to use it if BRAKER was run in ESmode.
 
 -   braker.codingseq: Final gene set with coding sequences in FASTA format