v0.3.0

• Added goalign replace command
• goalign rename command can clean names and handle unaligned sequences
• goalign stats alphabet can handle unaligned sequences

v0.3.0-alpha5

• Added phase and phasent commands
• Added sw alignment
• Added orf command
• Added mask command
• Possibility to use unaligned sequences in : addid, stats length, orf, phase, phasent, subset, sw, translate
• Added options --no-block and --one-line to phylip writer
• Modified draw biojs options
• Phylip parser corrections
• Added a character to remove in clean names
• build bootstrap : Set n threads to 1 when seed is given

v0.3.0-alpha

• Added bash/zsh completion
• Go 1.10.3
• Added dedup command to remove duplicate sequences
• Changed trim seq command line option --from-start,-s to --from-left,-l
• Changed seed option, now only --seed for all commands
• Corrected exit status / exit points
• Added a "console" mode, when goalign is called without any arguments
• Changed alignment data structure using anonymous fields
• Added sub-command alphabet to command stats
• Added command codonalign to align a given nucleotide fasta file using a corresponding protein alignment
• Added command ìdentical` to assess whether two alignments are identical

v0.2.9

• Added support for Clustal format as input/output
• Added goalign translate function
• Added goalign stats maxchar command
• Added --per-site option to goalign stats char command
• goalign rename can now take a regex to substitute substrings in sequence names
• Giving an output mapping file is not mandatory anymore for goalign trim name command
• Changed nexus parser to accept numeric sequence names

v0.2.8

• Added option --clean-names to all reformat commands
• Added raw distance computation with goalign compute distance -m rawdist
• Changed error handling in distance computations
• Added some tests

v0.2.7

• Changed nexus output datatype (format datatype=dna)
• Corrected fasta parser for sequences and names with spaces. Spaces in sequences are now removed, and spaces before sequence names are now removed

v0.2.7a

• Added goalign draw biojs command
• Added goalign reformat paml command

v0.2.6

• Added sliding window option to goalign subseq
• Added option to automatically rename sequences in goalign trim name
• Added possibility to give url as input alignment

v0.2.6b

• Added option --clean-names to goalign reformat phylip command
• Spaces and tabs are removed from start and end of sequence names
• Space and tabs are replaced by _ otherwise

v0.2.5

• Using dep to manage dependencies
• Removed dependency to gotree for nexus parser