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bioSyntax: syntax highlighting for computational biology
Artem Babaian1,2, Anicet Ebou3, Alyssa Fegen4
1Terry Fox Laboratory, BC Cancer Research Centre, 675 West 10th Avenue, Vancouver, BC, V5Z 1L3, Canada. ababaian@bccrc.ca.
Background:
Computational biology requires the reading and comprehension of biological data files. Plain-text formats such as SAM, VCF, GTF, PDB and FASTA, often contain critical information which is obfuscated by the data structure complexity.
Results:
bioSyntax ( https://biosyntax.org/ ) is a freely available suite of biological syntax highlighting packages for vim, gedit, Sublime, VSCode, and less. bioSyntax improves the legibility of low-level biological data in the bioinformatics workspace.
Conclusion:
bioSyntax supports computational scientists in parsing and comprehending their data efficiently and thus can accelerate research output.
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