Workflow Type: Galaxy
Estimate a phylogenetic tree from whole genome sequencing data for M. tuberculosis
Associated Tutorial
This workflows is part of the tutorial Tree thinking for tuberculosis evolution and epidemiology, available in the GTN
Thanks to...
Tutorial Author(s): Christoph Stritt, Daniela Brites, Galo A. Goig
Tutorial Contributor(s): Wolfgang Maier, Helena Rasche, Peter van Heusden, Christoph Stritt, Saskia Hiltemann, Bérénice Batut, Björn Grüning
Inputs
ID | Name | Description | Type |
---|---|---|---|
Input alignment | #main/Input alignment | Alignment in fasta format, containing variable positions from variant calling |
|
Steps
ID | Name | Description |
---|---|---|
1 | RStudio | Use R to visualize a phylogenetic tree interactive_tool_rstudio |
2 | Estimate phylogeny with RAxML | Maximum likelihood-based inference of a phylogenetic tree toolshed.g2.bx.psu.edu/repos/iuc/raxml/raxml/8.2.4+galaxy2 |
Outputs
ID | Name | Description | Type |
---|---|---|---|
Best-scoring ML Tree | #main/Best-scoring ML Tree | n/a |
|
Info | #main/Info | n/a |
|
Version History

Creators
Not specifiedSubmitter
Discussion Channel
Tool
Activity
Views: 39 Downloads: 5 Runs: 0
Created: 2nd Jun 2025 at 10:59

None