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Release 3 - Investigate alternative programs #110

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DLBPointon opened this issue Jun 7, 2023 — with Slack · 1 comment

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enhancement Release 3

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DLBPointon commented Jun 7, 2023

Pyfasta (written in 2018) is archived, it's successor Pyfaidx isn't suitable for our use (no split function).

However, there is pyfastx (https://github.com/lmdu/pyfastx) which uses samtools index to do the job fasta. Should have a look.

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DLBPointon commented Jun 7, 2023

Pandas 1.4.3 is used in selfcomp. Current version is 2.0.2, this promises significant performance improvements especially over large datasets.

DLBPointon added the Release 3 label

muffato added this to the Release 3 milestone

DLBPointon changed the title ~~Release 2 - Investigate alternative programs~~ Release 3 - Investigate alternative programs

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