WIP H7N6 build #108
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WIP H7N6 build #108
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jameshadfield
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Very ad-hoc / temporary approach I used to generate FASTA files which I could then use as inputs for avian-flu builds. Avoids any use of the rethink db. See <nextstrain/avian-flu#108> for the corresponding avian-flu work.
Requires custom data via fauna to be present in the `ingest/fauna/data` directory. Reference genomes are from H7N9 and should be improved. Ingest: ``` cd ingest snakemake --cores 1 -pf all ``` Phylo: ``` snakemake --cores 4 -pf -s gisaid/Snakefile --configfile config/h7n6.yaml ```
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Requires custom data via fauna to be present in the
ingest/fauna/datadirectory.Reference genomes are from H7N9 and should be improved.
Ingest:
Phylo: