BioSequences

Bio.jl is old and deprecated

Hi there! There have been incidents of confusion where newer users have tried to install and run an old and deprecated BioJulia package called Bio.jl, or they have not known which package(s) they need to install in order to start working. So I'd like to take the opportunity to clear this situation up and perhaps put out a clearer explanation, of why Bio.jl exists when there are other packages with overlapping functionality.

On the performance and design of BioSequences compared to the Seq language

Introduction In October 2019, a paper was published in Proceedings of the ACM on Programming Languages, introducing a new language for bioinformatics called Seq. In it, the authors rightly recognize that the field of bioinformatics is in need of a high-performance, yet expressive and productive language. They present Seq, a domain specific compiled language, with the user friendliness of Python, the performance of C, and bioinformatics-specific data types and optimisations. As Julians, we consider their goal to be noble and well worth pursuit.