Create rule to introduce variants

mbhall88 / pandora_simulations

Pipeline for the simulations to evaluate de novo variant discovery in pandora

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Create rule to introduce variants #5

Closed mbhall88 closed 5 years ago

mbhall88 commented 5 years ago

Introducing variants to the random path that is being used as the original reference. Also need a rule to join the mutated paths together to simulate reads from.

mbhall88 commented 5 years ago

Use https://github.com/CFSAN-Biostatistics/snp-mutator

mbhall88 commented 5 years ago

Created bioconda recipe for snp-mutator here https://github.com/CFSAN-Biostatistics/snp-mutator/issues/1

mbhall88 commented 5 years ago

Created snakemake wrapper for snp-mutator here https://bitbucket.org/snakemake/snakemake-wrappers/pull-requests/69/add-snp-mutator-wrapper