Changes in version 0.1.5 (2026-04-28)                  

Internal changes: ----------------- - Default setting of pctopt function
has been changed from ignoregappositions = FALSE to ignoregappositions =
TRUE. - Citation of published paper of this package has been updated.

                 Changes in version 0.1.4 (2025-10-20)                  

Internal changes: ----------------- - pairwiseAlignment() has moved from
Biostrings to the pwalign package.

                 Changes in version 0.1.3 (2024-08-26)                  

Internal changes: ----------------- - An option to compare viral
quasispecies at amino acid level was added to "vqscompare" function
("proteincoding" and "removestopcodon" arguments). - "AAcompare"
function added to the package - Documentations updated - Reference in
the DESCRIPTION file updated - Github link in README.md fixed

                 Changes in version 0.1.2 (2024-04-14)                  

Internal changes: ----------------- - Description file correction ·
Abbreviation explained - Unnecessary print() in all functions removed

                        Changes in version 0.1.1                        

Internal changes: ----------------- - Description file correction · Edit
package description (add reference) - "vqsresub" function added

                        Changes in version 0.1.0                        

Initial CRAN submission.