Genealogy Part 1 - veeninglab/BactMAP GitHub Wiki

Before you get started

1. Start R & load BactMAP. Find installation & loading instructions for BactMAP here.
2. If you want to run this tutorial using example data, you can load the “ssbB”-datasets which are saved here. To get more information on the biological meaning of the dataset, check the documentation. If you want to do this tutorial using your own data, check BactMAP’s import functions here.
3. Set the working directory of your R session to the extracted folder "Time-Lapse-Analysis". Specify the path using the command setwd(), for example:

setwd("C:/the/path/to/Time-Lapse-Analysis")

4. Now, open the following files:

load("ssbB_meanfluo.RDA")
load("ssbB_phylos.RDA")
load("ssbB_network.RDA")

myTreeDF <- ssbB_meanfluo
myTreeNetwork <- ssbB_network
myTreePhylo <- ssbB_phylos

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:arrow_left: Plotting Genealogy: Overview	:black_small_square: :black_medium_small_square: :black_small_square:	Genealogy Part 2: Data Import :arrow_right: