dadi-cli GenerateFs --bootstrap generates unfolded FS by default

[Maycon Oliveira]

Hello Ryan. I'm trying to run dadi using the dadi-cli, but I'm having an issue with generating bootstrapped SFSs from a VCF file. It seems that, by default, the bootstrapping procedure generates polarized (aka unfolded) SFSs even when not using the --polarized argument. In my case, this results in 100 replicates with 0s all around the SFS. Could you be bothered to take a look at this?

[Travis Struck]

Hi Maycon, I've pushed a fix to the GitHub source code and PyPi. The fix should be on conda-forge within the next 24 hours.

Thanks for letting us know about the issue.

- Travis

On Mon, Mar 2, 2026 at 10:01 AM Maycon Oliveira <oliveira...@gmail.com> wrote:

Hello Ryan. I'm trying to run dadi using the dadi-cli, but I'm having an issue with generating bootstrapped SFSs from a VCF file. It seems that, by default, the bootstrapping procedure generates polarized (aka unfolded) SFSs even when not using the --polarized argument. In my case, this results in 100 replicates with 0s all around the SFS. Could you be bothered to take a look at this?

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