v0.4.0

New functionalities:

• Simplot : Added command goalign compute simplot to generate similarity plot data and image
• Mutation list : Added option --codon to goalign stats mutation list command (37eb44c , d79470b , c961992)
• Extract sequence from the end : Added option for specifying negative lengths (-l --length) in goalign subseq command to extract alignment from the end (a3a0522)

Updates:

• Logo : Updated goalign/gotree logo
• GO: Updated go to version 1.24.11 (1173ca5, d30c6e7)

Corrections

• Corrected a problem in goalign clean sites affecting the counts when --ignore-n was specified (d30c6e7)