SIMSApiper is a Nextflow pipeline that creates reliable, structure-informed MSAs of thousands of protein sequences in time-frames faster than standard structure-based alignment methods. Structural information can be provided by the user or collected by the pipeline from online resources. Parallelization with sequence identity based subsets can be activated to significantly speed up the alignment process. Finally, the number of gaps in the final alignment can be reduced by leveraging the position of conserved secondary structure elements.
Originele taal-2English
Aantal pagina's5
Nummer van het tijdschrift5
StatusPublished - 22 apr 2024

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Publisher Copyright:
© 2024 The Author(s). Published by Oxford University Press.


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