Merge pull request nf-core#1623 from nf-core/1621

FIX: misleading docs - xref 1621

CHANGELOG.md

@@ -9,12 +9,14 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ### Added
 
-- [1614](https://github.com/nf-core/sarek/pull/1614) Back to dev
+- [1614](https://github.com/nf-core/sarek/pull/1614) - Back to dev
 
 ### Changed
 
 ### Fixed
 
+- [1623](https://github.com/nf-core/sarek/pull/1623) - Update docs to clarify vep cache folder organisation
+
 ### Removed
 
 ### Dependencies

docs/usage.md

@@ -871,7 +871,7 @@ To use these, supply the parameters `--vep_cache` and/or `--snpeff_cache` with t
 ### Specify the cache location
 
 Params `--snpeff_cache` and `--vep_cache` are used to specify the locations to the root of the annotation cache folder.
-The cache will be located within a subfolder with the path `${snpeff_species}.${snpeff_version}` for SnpEff and `${vep_species}/${vep_genome}_${vep_cache_version}` for VEP.
+The cache will be located within a subfolder with the path `${snpeff_species}.${snpeff_version}` for SnpEff and `${vep_species}/${vep_cache_version}_${vep_genome}` for VEP.
 If this directory is missing, Sarek will raise an error.
 
 For example this is a typical folder structure for `GRCh38` and `WBCel235`, with SNPeff cache version 105 and VEP cache version 110: