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We're currently adding all alignments into the ARG regardless of how much missingness there is. We currently have a max_masked_sites_per_sample of 6535 (2021-02-26) which seems quite high.
What wou…
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## Proposal to leave missing values as missing (at least for now)
I'm working on code for XGboost and Catboost models, and am deciding how to handle missingness. I am guessing Catboost will be the pr…
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Does this code apply to completely random missingness? I constructed my own missing dataset and found that the loss values were similar to those with the same missing rate for variable missingness.
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### Motivation
In many settings it's useful to treat missingness as a new category when it affects a categorical column. It would be great to have some transformer (with a meaningful name) that trans…
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This will be added to and checked off as I work through the response document for me to keep track of stuff I'm handling.
- [x] Check if we are scaling by `tau_max` in the results shown in the manu…
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## The Issue
When working with msqrob2, particularly with the msqrobLm function on single-cell data, a significant number of features produce a fitError object. This issue arise from the high prese…
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Currently just MAC >= 2 to drop singletons, it's possible that missingness, etc. as in similar 1kG pipelines could be useful.
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- if we're trying to justify including change at all, having the "ideal" version (without contract induced data gaps) of the signal as a different covariate would be useful. This could be a different …
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## Feature Description
I have developed a GAN framework for generating irregularly sampled time series with missing values, however, I cannot add it to synthcity as it does not support time series da…
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As predicted @tomwhite we've hit https://github.com/sgkit-dev/vcf-zarr-spec/issues/11 pretty quickly when adding tests on real VCF files. I added a quick cludge to workaround the first case I hit, but…