Merge pull request #1383 from tdanhorn/dev

Fix `--three_prime_clip_r{1,2}` parameter documentation (fixes #1382)

CHANGELOG.md

@@ -31,7 +31,9 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - [#1351](https://github.com/nf-core/sarek/pull/1351) - Fix params name for test profiles (`bcftools_annotations`)
 - [#1357](https://github.com/nf-core/sarek/pull/1364) - Fixed bug where samples were dropped while reconstituting BAM files
 - [#1373](https://github.com/nf-core/sarek/pull/1373) - Add `chr` prefix to NCBench bed file & enable trimming
-- [#1373](https://github.com/nf-core/sarek/pull/1381) - Swap NGSCheckMate bed file for GATK.GRCh37 to one without the `chr` prefix
+- [#1381](https://github.com/nf-core/sarek/pull/1381) - Swap NGSCheckMate bed file for GATK.GRCh37 to one without the `chr` prefix
+- [#1383](https://github.com/nf-core/sarek/pull/1383) - Fix `--three_prime_clip_r{1,2}` parameter documentation
+- [#1390](https://github.com/nf-core/sarek/pull/1390) - Fix badges in README
 
 ### Removed
 

nextflow_schema.json

@@ -158,15 +158,15 @@
                     "default": 0,
                     "fa_icon": "fas fa-cut",
                     "description": "Remove bp from the 3' end of read 1",
-                    "help_text": "This may remove some unwanted bias from the 3'.  Corresponds to the FastP flag `--three_prime_clip_r1`.",
+                    "help_text": "This may remove some unwanted bias from the 3'.  Corresponds to the FastP flag `--trim_tail1`.",
                     "hidden": true
                 },
                 "three_prime_clip_r2": {
                     "type": "integer",
                     "default": 0,
                     "fa_icon": "fas fa-cut",
                     "description": "Remove bp from the 3' end of read 2",
-                    "help_text": "This may remove some unwanted bias from the 3' end. Corresponds to the FastP flag `--three_prime_clip_r2`.",
+                    "help_text": "This may remove some unwanted bias from the 3' end. Corresponds to the FastP flag `--trim_tail2`.",
                     "hidden": true
                 },
                 "trim_nextseq": {