R for Bioinformatics | How to Visualize Phylogenetic Trees using ggtree

Bioinformatics Coach
Bioinformatics Coach
3.7 هزار بار بازدید - 2 سال پیش - ________________________________________________________________________________Course Materials________________________________________________________________________________download the dataset here
________________________________________________________________________________
Course Materials
________________________________________________________________________________
download the dataset here
   https://github.com/vappiah/R-for-Bioi...

ggtree documentation
   https://bioconductor.org/packages/dev...
   https://yulab-smu.top/treedata-book/
   http://treegraph.bioinfweb.info/Help/...


________________________________________________________________________________________
Useful videos
________________________________________________________________________________________
How to generate phylogenetic trees using raxml
   How to Build any Phylogenetic Trees u...
How to install R & R packages in Linux
   Install, Configure and Run R , Rstudi...
How to install R & R packages in Linux using Anaconda
   Install, Configure and Run R & R pack...


________________________________________________________________________________
Sections of this video
________________________________________________________________________________
00:00  intro and pc requirement
00:33  online manual for ggtree
02:17  dowload the example data
04:26  load the library
04:40  set the working directory
06:41  read a phylogenetic tree
08:28  generate a basic tree
08:55  add labels
10:05  disable ladderizing  
12:34  change the color of lines
13:49  change size of lines
14:54  change the line type
15:45  change line color,size and type at once:
17:23  prevent ggtree from using branch length to scale the tree
19:36  change layout of the tree
22:18  show bootstrap values on trees


________________________________________________________________________________________________
Subscribe to my channels
________________________________________________________________________________________________
   Bioinformatics: @bioinformaticscoach
   Data Science: @datasciencecoach
   Short Clips: @bioinformaticsclips


______________________________________________________________________________________
Support this Channel
________________________________________________________________________________________________
   Patreon: bigdataanalytics
   https://www.buymeacoffee.com/informat...
   https://paypal.me/theinformatician


________________________________________________________________________________________________
One-on-one coaching
________________________________________________________________________________________________
   https://clarity.fm/vincentappiah


________________________________________________________________________________________________
Reach out
________________________________________________________________________________________________
   [email protected]





#bioinformatics  #bioinformaticsforbeginners #bioinformática #genomics #genomesequencing #genome #phylogeny #rprogrammingforbeginners #rprogramming
2 سال پیش در تاریخ 1401/06/14 منتشر شده است.
3,769 بـار بازدید شده
... بیشتر