Fig. 9
From: Reduced metagenome sequencing for strain-resolution taxonomic profiles
The left of panel A shows a tree for the 54 E. coli strains, based on the whole-genome p-distances, with a scale marker in the lower right corner. The leaf nodes are marked by how they were classified as present in a single sample. No leaf marker means classified as absent by both shotgun + Kraken2 and RMS + COLS. Grey markers indicate classified as present by shotgun + Kraken2 only. Black dots indicate classified as present by both methods. No genomes were classified as present by RMS + COLS only. In the right of panel B, the boxplot shows the number of genomes, out of the 54, estimated to be present by RMS + COLS over time in all infant gut samples (Meconium is newborn feces). There are 94 samples behind each box