Merge pull request #5 from jfy133/polyg-name-improvements

Polyg name improvements

Author: jfy133

CHANGELOG.md

@@ -10,7 +10,7 @@ and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0.
 
 ### `Fixed`
 * [#145](https://github.com/nf-core/eager/issues/145) - Added Picard Memory Handling [fix](https://github.com/nf-core/eager/issues/144)
-
+* Clarified `--complexity_filter` flag to be specifically for poly G trimming.
 
 ## [2.0.5] - 2019-01-28
 

docs/usage.md

@@ -299,7 +299,7 @@ Turns off duplicate removal methods DeDup and MarkDuplicates respectively. No du
 
 ## Complexity Filtering Options
 
-### `--complexity_filter`
+### `--complexity_filter_poly_g`
 
 Performs a poly-G tail removal step in the beginning of the pipeline, if turned on. This can be useful for trimming ploy-G tails from short-fragments sequenced on two-colour Illumina chemistry such as NextSeqs (where no-fluorescence is read as a G on two-colour chemistry), which can inflate reported GC content values.