Mtb phylogeny
1.0 (latest)

1.0 (latest)

3.0 (earliest)

Visit source

Download RO-Crate

Workflow Type: Galaxy

Estimate a phylogenetic tree from whole genome sequencing data for M. tuberculosis

Associated Tutorial

This workflows is part of the tutorial Mtb phylogeny, available in the GTN

Thanks to...

Tutorial Author(s): Christoph Stritt, Daniela Brites, Galo A. Goig

Tutorial Contributor(s): Wolfgang Maier

SEEK ID: https://dev.workflowhub.eu/workflows/1300?version=2

Inputs

ID	Name	Description	Type
Input alignment	#main/Input alignment	Alignment in fasta format, containing variable positions from variant calling	File

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	File
Info	#main/Info	n/a	File

Version History

1.0 (latest) Created 16th Jul 2024 at 14:24 by Helena Rasche

Added/updated 4 files

Open master b9726bf

3.0 (earliest) Created 25th Jun 2024 at 11:21 by Helena Rasche

Added/updated 4 files

Frozen 3.0 c5b910d

Creators and Submitter

Creators

Not specified

Submitter

Helena Rasche

Discussion Channel

GTN Matrix

Tool

RAxML

License

Creative Commons Attribution 4.0 International

Activity

Views: 194 Downloads: 80

Created: 25th Jun 2024 at 11:21

Last updated: 25th Jun 2024 at 11:21

Mtb phylogeny 1.0 (latest) 1.0 (latest) 3.0 (earliest)