Inferring Trajectories with Scanpy Tutorial Workflow
1.0

Workflow Type: Galaxy

Associated Tutorial

This workflows is part of the tutorial Inferring single cell trajectories with Scanpy, available in the GTN

Features

Thanks to...

Workflow Author(s): Marisa Loach

Tutorial Author(s): Marisa Loach, Wendi Bacon, Julia Jakiela, Mehmet Tekman

Tutorial Contributor(s): Pavankumar Videm, Helena Rasche, Björn Grüning, Marisa Loach, Wendi Bacon, Saskia Hiltemann, Mehmet Tekman

gtn star logo followed by the word workflows

Inputs

ID Name Description Type
Input Anndata Input Anndata n/a
  • File

Steps

ID Name Description
1 Manipulate AnnData toolshed.g2.bx.psu.edu/repos/iuc/anndata_manipulate/anndata_manipulate/0.7.5+galaxy1
2 Scanpy RunFDG toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_fdg/scanpy_run_fdg/1.8.1+galaxy9
3 Scanpy PlotEmbed toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_plot_embed/scanpy_plot_embed/1.8.1+galaxy9
4 Scanpy DiffusionMap toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_diffmap/scanpy_run_diffmap/1.8.1+galaxy9
5 Scanpy ComputeGraph toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_compute_graph/scanpy_compute_graph/1.8.1+galaxy9
6 Scanpy RunFDG toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_fdg/scanpy_run_fdg/1.8.1+galaxy9
7 Scanpy PlotEmbed toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_plot_embed/scanpy_plot_embed/1.8.1+galaxy9
8 Scanpy PAGA toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_paga/scanpy_run_paga/1.8.1+galaxy9
9 Scanpy PlotTrajectory toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_plot_trajectory/scanpy_plot_trajectory/1.8.1+galaxy9
10 Scanpy RunFDG toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_fdg/scanpy_run_fdg/1.8.1+galaxy9
11 Scanpy PlotEmbed toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_plot_embed/scanpy_plot_embed/1.8.1+galaxy9
12 Scanpy PlotEmbed toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_plot_embed/scanpy_plot_embed/1.8.1+galaxy9
13 Scanpy PlotEmbed toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_plot_embed/scanpy_plot_embed/1.8.1+galaxy9
14 Final Anndata with Trajectory and DPT toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_dpt/scanpy_run_dpt/1.8.1+galaxy9
15 Scanpy PlotEmbed toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_plot_embed/scanpy_plot_embed/1.8.1+galaxy9

Version History

1.0 (earliest) Created 2nd Jun 2025 at 10:57 by GTN Bot

Added/updated 4 files


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Created: 2nd Jun 2025 at 10:57

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