Comments (2)
yupenghe
commented on May 31, 2024
The description about this option could be a bit confusing. In the current implementation, it is the minimum number of samples in one category to present in the hyper/hypo-methylated group for a DMR to be valid. So, in your case, it is not what you want. There is no parameter for doing what you propose but you can do that by parsing the rms_results_collapsed.tsv file.
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shellywanamaker
commented on May 31, 2024
Got it. Thanks for clarifying @yupenghe!
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Related Issues (20)
- Running RMS tests failed. HOT 18
- Ubuntu Optional step to Compile rms.cpp is formatted wrong HOT 1
- bam-quality-filter NOMe-seq HOT 2
- Methylation calling in non-directional libraries HOT 1
- Help for parameters tuning.
- mapping to a large genome HOT 1
- Methylpy in plant HOT 7
- DMR HOT 4
- binom-test failed HOT 15
- DMRfind-Histogram FDR correction did not converge. HOT 1
- NAs of methylpy add-methylation-level result HOT 5
- low align rate conflicting with bismark align rate HOT 4
- how to acquire or calculate the mapping efficiency using methylpy? HOT 3
- methylpy has took long time. HOT 2
- CpG HOT 1
- running reidentify-DMR on the DMRfind results HOT 6
- Double free or corruption error when running run_test.py HOT 1
- methylpy call-methylation-state HOT 9
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