v0.6.4

Adds

• [bedmethyl] Adds --min-samples (an integer or all) and --min-sample-coverage to bedmethyl merge to require a position to be present in (and optionally covered to a minimum valid depth in) multiple inputs, enabling an inner join across replicates. Omitting them preserves the original outer-join behaviour.

Fixes

• [dmr, isoform] Fix tool tips in isoform plot.
• [dmr, isoform, compare-tx-sites] Makes GTF parsing more robust.
• [dmr, compare-tx-sites] Fix bug where unmethylated counts are not calculated correctly.
• [dmr, compare-tx-sites] Fix bug where conditions are swapped.

Changes

• [dmr] Don't allow negative Cohen's CI values
• [pileup] When using 'any-code' make it the default for all mods on that base.