Comments (4)
I removed all references to those lines and the tests still passed. So just wondering if it is something that should be used anywhere or if it is okay to remove.
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If it's not huge memory overhead, I'd love to keep them. They are helpful for tuning the MH algorithm to ensure fast convergence (essentially it controls the size of the proposed steps). As a developer I don't often need them but I want to be able to easily pull them out if I do need to. Thanks so much, @mooreryan !!
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Ah, I just saw this....I actually removed tracking them in #47, but if you want I can try and put them back in!
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Closing this issue because I just checked fit_aitchison.R, and both lines 119 and 160 are there tracking the accept values. Thanks for your help Ryan!
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Related Issues (20)
- use speedyseq instead of phyloseq HOT 1
- vignette detailing general guidance for using covariates... HOT 3
- Can phylodivnet be added to betaDiversity vignette? HOT 5
- Problem with simplifyBeta() HOT 6
- Estimating Shannon Evenness with uncertainty and other parameters associated with diversity values HOT 1
- Cannot allocate vector of size with suspiciously large phyloseq object HOT 6
- simplifyBeta() missing functionality for aitchison distance HOT 3
- Error in default_network(sigma) HOT 5
- testBetaDiversity pseudo F-statistic calculation HOT 2
- Choice of base ASV and influence on reproducibility HOT 7
- rename master to main HOT 1
- code coverage audit HOT 2
- Diversity estimates not plausible HOT 16
- DivNet on rRNA gene counts derived from metagenomes? HOT 7
- R "killed" or cores not returning data HOT 4
- Diversity for subsets of the total profile HOT 3
- Beta diversity test for binomial covariate HOT 3
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- unit tests HOT 2
- problems with beta_diversity.Rmd HOT 12
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