Is there a simple way to extract the genotypes of the clones inferred by Lichee?
While the output (*trees.txt) contains which mutations occur at which clone (and the samples at which each clone is present), I was wondering if there's an option to get the actual clonal genotypes (e.g., Clone 1: AGCGGTCAAGGGACG.., etc).
Dear Victoria,
Is there a simple way to extract the genotypes of the clones inferred by Lichee? While the output (*trees.txt) contains which mutations occur at which clone (and the samples at which each clone is present), I was wondering if there's an option to get the actual clonal genotypes (e.g., Clone 1: AGCGGTCAAGGGACG.., etc).
Thank you very much in advance. Joao