Related Issues (20)
- `evaluate_seqs`: add `max-accepts` parameter
- `evaluate_seqs`: add optional input of `FeatureData[Taxonomy]` for labeling features
- `evaluate_composition`: multiple score plots in viz?
- `evaluate_composition`: fix _validate_metadata_values_are_subset error message
- Add Citations
- convert `evaluate_*` visualizers to pipelines
- BUG: TAR/TDR values are getting switched
- `evaluate-seqs`: replace histograms with scatterplot of similarity X coverage X abundance
- exclude-seqs vsearch fails to parse with imported fasta HOT 1
- evaluate-composition: R2 values not computing correctly
- Exact sequence start match filter for exlude-seqs HOT 2
- IMP: expose 'strand' argument to `exclude-seqs`
- filter-reads adds too many file extensions
- ENH: add MCC to evaluation metrics
- `filter_reads` returns no sequences on single-end reads input HOT 1
- _blast.py suggestions HOT 1
- Hyphens in metadata columns not consistently converted to R dot syntax in decontam-identify
- test additions
- updates to Decontam functionality in quality control
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