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[paul-bio]

Hello PSMC developer,

I am encountering two minor issue that I need assistance with.
I have short-read data from Illumina with a coverage of 100x and a reference genome assembled at the chromosome level from PacBio.

1. Both the Illumina and PacBio sequencing data are from the same individual of the same species. Can I proceed with using PSMC, or should I obtain Illumina sequencing data from a different individual of the same species?

2. Is it okay to use a scaffolded or contig-level genome for PSMC analysis?

Thank you for your assistance.
Best regards,
Paul.