Fig. 4
From: Clonal reconstruction from time course genomic sequencing data
Clonal reconstruction on the E. coli LTEE data. a Clonal tree obtained by constrained search with GP-GT on the metagenome sequencing data. The four sequenced clones are shown in gray. b Reconstructed haplotypes depicted in a table where each row represents a clone and each column represents a variant. The variant locus and the gene where it is located are shown in the column header. Non coding region is marked as nc. When a clone has a specific variant, the corresponding cell is marked as 1, otherwise 0. Sequenced clones are highlighted in gray. c The Muller plot showing the predicted clonal frequency changes over time. The colors correspond to those in the clonal tree. d Clonal tree obtained without constrained search