[no ci] Apply changes to documentation

Co-authored-by: Marcel <[email protected]>

doc/tutorial/pairwise_alignment/index.md

@@ -111,15 +111,15 @@ seqan3::align_cfg::method_global.
 It would be wrong for us to assume what the intended default behaviour should be.
 
 The global alignment can be further refined by initialising the configuration element with
-the free end gap specifiers. They specify whether or not gaps at the end of the sequences are penalised.
+the free end gap specifiers. They specify whether gaps at the end of the sequences are penalised.
 In SeqAn you can configure this behaviour for every end, namely
 for leading and trailing gaps of the first and second sequence.
 seqan3::align_cfg::method_global is constructed with 4 free end gap specifiers (one for every end):
 
- - seqan3::align_cfg::free_end_gaps_sequence1_leading - If set to true, aligning leading gaps in first sequence is not penelised.
- - seqan3::align_cfg::free_end_gaps_sequence2_leading - If set to true, aligning leading gaps in second sequence is not penelised.
- - seqan3::align_cfg::free_end_gaps_sequence1_trailing - If set to true, aligning trailing gaps in first sequence is not penelised.
- - seqan3::align_cfg::free_end_gaps_sequence2_trailing - If set to true, aligning trailing gaps in second sequence is not penelised.
+ - seqan3::align_cfg::free_end_gaps_sequence1_leading - If set to true, aligning leading gaps in first sequence is not penalised.
+ - seqan3::align_cfg::free_end_gaps_sequence2_leading - If set to true, aligning leading gaps in second sequence is not penalised.
+ - seqan3::align_cfg::free_end_gaps_sequence1_trailing - If set to true, aligning trailing gaps in first sequence is not penalised.
+ - seqan3::align_cfg::free_end_gaps_sequence2_trailing - If set to true, aligning trailing gaps in second sequence is not penalised.
 
 The following code snippet demonstrates the different use cases:
 
@@ -281,7 +281,7 @@ The `edit_scheme` still has to be combined with an alignment method. When combin
 with the seqan3::align_cfg::method_global configuration element, the edit distance algorithm
 can be further refined with free end gaps (see section `Global and semi-global alignment`).
 
-\attention Only the the following free end gap configurations are supported for the
+\attention Only the following free end gap configurations are supported for the
 global alignment configuration with the edit scheme:
 - no free end gaps (all free end gap specifiers are set to `false`)
 - free end gaps for the first sequence (free end gaps are set to `true` for the first and

include/seqan3/alignment/all.hpp

@@ -88,7 +88,7 @@
  * | \ref seqan3::align_cfg::parallel "5: Parallel"           |  ✅   |  ✅   |  ✅   |  ✅   |  ✅   |  ❌   |  ✅   |  ✅   |  ✅   |
  * | \ref seqan3::align_cfg::result "6: Result"               |  ✅   |  ✅   |  ✅   |  ✅   |  ✅   |  ✅   |  ❌   |  ✅   |  ✅   |
  * | \ref seqan3::align_cfg::scoring "7: Scoring scheme"      |  ✅   |  ✅   |  ✅   |  ✅   |  ✅   |  ✅   |  ✅   |  ❌   |  ✅   |
- * | \ref seqan3::align_cfg::vectorised "8: Vectorised"         |  ✅   |  ✅   |  ✅   |  ✅   |  ✅   |  ✅   |  ✅   |  ✅   |  ❌   |
+ * | \ref seqan3::align_cfg::vectorised "8: Vectorised"       |  ✅   |  ✅   |  ✅   |  ✅   |  ✅   |  ✅   |  ✅   |  ✅   |  ❌   |
  *
  * \if DEV
  * There is an additional configuration element \ref seqan3::align_cfg::debug "Debug", which enables the output of the