Skip to content

Commit

Permalink
replace cluster with clade in README
Browse files Browse the repository at this point in the history
  • Loading branch information
tuner committed Nov 7, 2024
1 parent 70ce470 commit 7fccfc3
Showing 1 changed file with 4 additions and 4 deletions.
8 changes: 4 additions & 4 deletions README.md
Original file line number Diff line number Diff line change
Expand Up @@ -47,9 +47,9 @@ The Jellyfish algorithm optimizes the readability of the visualization by
pushing the emerging subclones towards the leaves of the sample tree. In
practice, Jellyfish finds the [Lowest Common
Ancestor](https://en.wikipedia.org/wiki/Lowest_common_ancestor) (LCA) of each
cluster (a subclone and all its descendants) in the sample tree. The LCA is
visualized as an emerging bell, indicating where the subclone first appears in
the sample tree.
clade (a subclone and all its descendants) in the sample tree. The LCA subclone
is visualized as an emerging bell, indicating where the subclone first appears
in the sample tree.

Each sample without an explicit parent is considered a child of the _inferred
root_ sample. It is a virtual or hypothetical sample that is used to anchor the
Expand All @@ -61,7 +61,7 @@ subclones that have been observed in multiple real samples.
- Visualizes tumor phylogeny and subclonal compositions as a Jellyfish plot.
- Allows visualizing both temporal and spatial relationships between samples.
- Sorts samples based on the subclonal composition and divergence, effectively grouping similar samples together.
- Provides basic interactivity for exploring the plot, such as highlighting subclones and clusters upon hover or click, and displaying details in tooltips.
- Provides basic interactivity for exploring the plot, such as highlighting subclones and clades upon hover or click, and displaying details in tooltips.
- Generates phylogeny-aware color schemes for subclones, inspired by [Visualizing Clonal Evolution in Cancer](http://dx.doi.org/10.1016/j.molcel.2016.05.025) by Krzywinski.
- Exports the plot as publication-ready SVG or PNG files.
- Adjustable layout parameters for fine-tuning the plot appearance.
Expand Down

0 comments on commit 7fccfc3

Please sign in to comment.