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MSA2dist
1.7.5
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Changelog
Changelog
Source:
NEWS.md
MSA2dist 1.7.5 (2024-03-28)
BUG FIXES
fixed dnastring2kaks to work with local alignments
fixed indices2kaks to work with local alignments
fixed cds2codonaln to work with local alignments
fixed cdsstring2codonaln to work with local alignments
NEW FEATURES
added return.cds parameter to cds2aa for local alignments
MSA2dist 1.7.4 (2024-03-18)
BUG FIXES
fixed pal2nal
MSA2dist 1.7.3 (2024-03-14)
BUG FIXES
fixed dnastring2kaks to return correct orientation
fixed pal2nal to use gap_pos-n_i_codons_added-1
MSA2dist 1.7.2 (2024-03-14)
BUG FIXES
fixed pal2nal to cover individual gaps longer than 1
MSA2dist 1.7.1 (2024-03-13)
NEW FEATURES
added pal2nal
added cdsstring2codonaln
added indices2kaks
added KaKs Calculator 2.0 example to vignette
CHANGES
changed dnastring2kaks to use cdsstring2codonaln function
MSA2dist 1.5.2 (2023-05-24)
NEW FEATURES
added aa2selfscore
MSA2dist 1.5.1 (2023-05-22)
NEW FEATURES
additional option to use asymmetric score matrix (symmetric=FALSE)
CHANGES
changed rcpp_distSTRING.cpp
changed rcpp_pairwiseDeletionAA.cpp
changed rcpp_pairwiseDeletionDNA.cpp
changed aastring2dist.R
changed dnastring2dist.R
MSA2dist 1.3.1 (2022-11-08)
NEW FEATURES
additional Genetic Codes into base.cpp
MSA2dist 1.1.7 (2022-10-05)
CHANGES
changed licence into GPL-3 to account for KaKs Calculator 2.0 licence
MSA2dist 1.1.6 (2022-09-22)
CHANGES
changed test-rcpp_KaKs
MSA2dist 1.1.5 (2022-09-19)
CHANGES
changed rcpp_KaKs data access from data.frame to list
MSA2dist 1.1.4 (2022-07-16)
BUG FIXES
fixed rcpp Warnings
MSA2dist 1.1.3 (2022-07-11)
BUG FIXES
fixed rcpp indentation Warnings
MSA2dist 1.1.2 (2022-07-05)
NEW FEATURES
Added KaKs Calculator 2.0 models as rcpp implementation
BUG FIXES
fixed some typos
MSA2dist 1.1.1 (2022-06-30)
NEW FEATURES
Added cds2codonaln
MSA2dist 0.99.3 (2022-03-18)
BUG FIXES
Fix RcppThread::LdFlags warning
MSA2dist 0.99.2 (2022-01-28)
NEW FEATURES
Added RcppThread::ProgressBar
MSA2dist 0.99.1 (2022-01-27)
CHANGES
Changed version number into 0.99.2
Changed URL links in DESCRIPTION
MSA2dist 0.99.0 (2021-12-22)
NEW FEATURES
Submitted to Bioconductor
CHANGES
Changed version number into 0.99.1
Changed name from distSTRING into MSA2dist
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