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docs: update docs v0.7.0
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Katherine Eaton committed Feb 22, 2023
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# Development

This is a minor release aimed towards a `nextclade` dataset upgrade from `2022-10-27` to `2023-01-09` which adds nomenclature for newly designated recombinants `XBH` - `XBM`. This release also adds initial support for the detection of "recursive recombination" including `XBL` and `XBN` which are recombinants of `XBB`.
This is a minor release aimed towards a `nextclade` dataset upgrade from `2022-10-27` to `2023-01-09` which adds nomenclature for newly designated recombinants `XBH` - `XBP`. This release also adds initial support for the detection of "recursive recombination" including `XBL` and `XBN` which are recombinants of `XBB`.

## Documentation

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- [Issue #205](https://github.com/ktmeaton/ncov-recombinant/issues/205): Add new column `parents_conflict` to indicate whether the reported lineages from covSPECTRUM conflict with the reported parental clades from `sc2rf.
- [Issue #213](https://github.com/ktmeaton/ncov-recombinant/issues/213): Add `XBK` to auto-pass lineages.
- [Issue #222](https://github.com/ktmeaton/ncov-recombinant/issues/222): Add new parameter `--gisaid-access-key` to `sc2rf` and `sc2rf_recombinants`.
- [Issue #229](https://github.com/ktmeaton/ncov-recombinant/issues/229): Fix bug where auto-pass lineages are missing when exclude_negatives is set to true.
- [Issue #231](https://github.com/ktmeaton/ncov-recombinant/issues/231): Fix bug where 'null' lineages in covSPECTRUM caused error in `sc2rf` postprocess.
- The order of the `postprocessing.py` was rearranged to have more comprehensive details for auto-pass lineages.
- Add `XAN` to auto-pass lineages.

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