meta data for this page
  •  

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

Both sides previous revisionPrevious revision
Next revision		Previous revision
compgenomics:modul1 [2025/05/16 07:24] – [Analysis] felixcompgenomics:modul1 [2025/09/23 13:09] (current) – felix
Line 26: Line 26:
 === Task 2: How are they related to each other? === === Task 2: How are they related to each other? ===
  
-  - Extract the information from the "taxid" column and save it in a ''.txt'' file+  - Extract the information from the "taxid" column and save it in a ''.txt'' file<WRAP> 
 +<hidden SPOILER> 
 +[[compgenomics:modul1:taxidfile|Download file with taxids from here]] 
 +</hidden></WRAP>
   - Go to [[https://www.ncbi.nlm.nih.gov/Taxonomy/CommonTree/wwwcmt.cgi|NCBI CommonTree]] and upload your ''.txt'' file (-> menu: **Add from file**)   - Go to [[https://www.ncbi.nlm.nih.gov/Taxonomy/CommonTree/wwwcmt.cgi|NCBI CommonTree]] and upload your ''.txt'' file (-> menu: **Add from file**)
   - Download the tree in Phylip format (-> menu: **save as -> phylip tree**)   - Download the tree in Phylip format (-> menu: **save as -> phylip tree**)
   - Open the [[https://itol.embl.de/|iTOL web page]]   - Open the [[https://itol.embl.de/|iTOL web page]]
   - Upload the tree into iTOL and explore:   - Upload the tree into iTOL and explore:
-    - How many animals, how many fungi, how many plants are there? (Tip: the nodes in the tree will be named according to entries in [[https://www.ncbi.nlm.nih.gov/taxonomy|NCBI Taxonomy]])+    - How many animals, how many fungi, how many plants are there? (<wrap tip>Tip:</wrap> the nodes in the tree will be named according to entries in [[https://www.ncbi.nlm.nih.gov/taxonomy|NCBI Taxonomy]])
     - Highlight these three clades with different colors     - Highlight these three clades with different colors
     - Compare the circular vs rectangular representation of the tree     - Compare the circular vs rectangular representation of the tree