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ptrebert / project-diploid-assembly

Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
MIT License
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Hifiasm as assembler #14

Closed LYC-vio closed 2 years ago

LYC-vio commented 2 years ago

Hi,

Thank you for developing this amazing pipeline! I've noticed that PGAS was motioned in a recently published paper Pangenome-based genome inference allows efficient and accurate genotyping across a wide spectrum of variant classes, where they used:

a development version of the PGAS pipeline (parameter settings v.13)

which:

employed hifiasm v.0.15.2 as default assembler

However, I didn't find any information about hifiasm or "parameter settings v.13" in this repository. Would you please give me some suggestions?

Best regards

ptrebert commented 2 years ago

Hi, there is a dev release tagged for the version of PGAS that was used in the PanGenie paper. Best, Peter