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. 2020 Feb 7;72(1):30–37. doi: 10.1093/cid/ciz1247

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Figure 3. — Inferred direction of transmission using different sample sets. The plot shows the inferred relationship between sequences from each couple based on analysis of data from different sample sets using a window width of 320 bp (individual sample pair analysis and group) and 380 bp (multisample group analysis). Each symbol (diamond, square, or triangle) represents the inferred relationship based on a single analysis; data from each couple are shown in 1 row, with participant identifier numbers shown on the y-axis. Diamonds show results obtained using data from individual sample pairs (1 sample per participant; 1 couple per analysis); squares show results obtained using group analysis (samples selected based on the timing of sample collection; all couples combined); triangles show results obtained using multisample group analysis (up to 2 samples per participant, all couples combined). Colors of symbols correspond to the inferred transmission direction: blue symbols indicate the correct inferred direction; yellow symbols indicate pairs that were classified as linked with no direction inferred; red symbols indicate that the analysis did not yield a result for linkage or transmission direction. Blank spaces indicate that the specific combination of samples (eg, index early+partner late) was not available for analysis.