Related Issues (20)
- better handling of FastTree failure
- add filter-table method
- Doc update HOT 1
- fasttree method can result in mismatched identifers between input and output
- Update citation text
- Swap FastTree for FastTreeMP (included in bioconda installation) HOT 6
- add filter-features methods HOT 4
- Questionable values are being added to `name` attribute HOT 2
- Implement convenience pipeline for fasttree-based tree building
- Add Citations
- fasttree method includes fasta description in tip ID if present
- BUG: `align_to_tree_mafft_fasttree` n_threads is inconsistent with help text HOT 2
- raxml, iqtree should have some parameter ranges defined HOT 1
- FastTreeMP removed from bioconda macos builds
- Add pplacer HOT 1
- expose --p-partree in align-to-tree-mafft-fasttree HOT 4
- IMP: allow user to supply backbone tree for RAxML
- new ci test failures HOT 5
- align_to_tree_mafft_fasttree with 'auto' for n_threads only uses 1 thread with FastTreeMP HOT 1
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