Figure Examples

Adam Steinbrenner

astein10@uw.edu
http://steinbrennerlab.org
Updated 5/13/2019

alluvial.md

Visualize flows of gene lists across categories in different conditions.

Input: DESeq output statistics, Output: Alluvial diagram using ggalluvial and ggplot.
See alluvial.md for rendered markdown, alluvial.Rmd for scripts

ggtree.md

Visualize gene features (species, HMM, heatmap etc) on a phylogenetic tree using ggtree

Input: newick tree, associated text files specifying features of interest and heatmap-type numerical data
Output: ggTree diagram with color, shape etc reflecting features

genoplot.md

Draw syntenic DNA segments based on genbank file inputs and blast comparisons

Input: a folder containing .gb sequences and .txt blast comparisons
Output: Features of interest drawn on dna segments, with syntenic comparisons