Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

The excessive number of mutations leads to a slow execution speed #142

Open
ghost opened this issue Jun 3, 2023 · 0 comments
Open

The excessive number of mutations leads to a slow execution speed #142

ghost opened this issue Jun 3, 2023 · 0 comments

Comments

@ghost
Copy link

ghost commented Jun 3, 2023

When the number of mutations in my ssm_data.txt file exceeds ten thousand, the execution speed of Phylowgs becomes extremely slow. I would like to know if the results obtained by constructing 3500 trees using a single MCMC chain are equally reliable compared to the results obtained by constructing 3500 trees using ten MCMC chains together.

In other words, are the reliability of the results obtained through the following two approaches the same:

Approach 1:
python2 multievolve.py --num-chains 1 --ssms ssm_data.txt --cnvs cnv_data.txt --burnin-samples 1000 --mcmc-samples 2500

Approach 2:
python2 multievolve.py --num-chains 10 --ssms ssm_data.txt --cnvs cnv_data.txt --burnin-samples 100 --mcmc-samples 250

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

0 participants