Exploring Current Challenges and Perspectives for Automatic Reconstruction of Clonal Evolution

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Figure 1.
Overview of algorithms identified for clonal evolution analysis. Approaches are classified according to the three main tasks analyzing clonal evolution: clustering of variants, reconstruction of clonal evolution trees and visualization.
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Figure 2.
Visualization of clonal evolution analyzing two representative examples of data set 1 (linear: patient 4; branched dependent: patient 5). (A) Visualization of linear evolution using fishplot. (B) Visualization of linear evolution using timescape. (C) Visualization of branched dependent evolution using fishplot. (D) Visualization of branched dependent evolution using timescape.
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Figure 3.
Visualization of clonal evolution analyzing three representative examples of data set 2 (linear: UPN01; branched dependently: UPN03; branched independent: UPN09). (A) Visualization of linear evolution using fishplot. (B) Visualization of linear evolution using timescape. (C) Visualization of branched dependent evolution using fishplot. (D) Visualization of branched dependent evolution using timescape. (E) Visualization of branched independent evolution using fishplot. Of note, timescape does not support visualization of branched independent evolution.