how to find out this parameters?

dereneaton / ipyrad

Interactive assembly and analysis of RAD-seq data sets

http://ipyrad.readthedocs.io

GNU General Public License v3.0

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how to find out this parameters? #458

Closed zilaijuand closed 2 years ago

zilaijuand commented 2 years ago

Dear isaacovercast: I want to inference the demography history using stairway plot2, but I am confused where should I find this parameters after obtaining SNP.vcf from ipyrad?

Thank you for taking the time!

isaacovercast commented 2 years ago

This information is at the very end of the *_stats.txt file:

## Alignment matrix statistics:
sequence matrix size: (12, 91000), 0.00% missing sites.
snps matrix size: (12, 4505), 0.00% missing sites.

The total sequence length here is 91000bp, including polymorphic and monomorphic sites.

zilaijuand commented 2 years ago

Thanks for your help！