Repository suite_scanpy_scripts
Name: suite_scanpy_scripts
Owner: ebi-gxa
Synopsis: scanpy-scripts, command-line wrappers around Scanpy.
Scanpy is a scalable toolkit for analyzing single-cell gene expression data. It includes
preprocessing, visualization, clustering, pseudotime and trajectory inference and
differential expression testing. Scanpy-scripts provides a set of command-line wrapper
scripts that are composed from Scanpy API for easy execution of common analysis.
Content homepage: https://scanpy.readthedocs.io
Development repository: https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/scanpy
Link to this repository: https://toolshed.g2.bx.psu.edu/view/ebi-gxa/suite_scanpy_scripts/519cfd8ac8bc
Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/ebi-gxa/suite_scanpy_scripts
Type: repository_suite_definition
Revision: 59:519cfd8ac8bc
This revision can be installed: True
Times cloned / installed: 581
Dependencies of this repository

Repository dependencies - scanpy-scripts, command-line wrappers around Scanpy.
Repository scanpy_run_tsne revision abdb61e4afa3 owned by ebi-gxa
Repository scanpy_run_dpt revision 03921aa8b29c owned by ebi-gxa
Repository anndata_ops revision a4774b7b2e85 owned by ebi-gxa
Repository scanpy_plot_scrublet revision 6f5509cf3176 owned by ebi-gxa
Repository scanpy_plot_trajectory revision cb1992d1804b owned by ebi-gxa
Repository scanpy_integrate_combat revision 3c47bc560688 owned by ebi-gxa
Repository scanpy_filter_cells revision bf1e0bdec1db owned by ebi-gxa
Repository scanpy_parameter_iterator revision 73d43034c860 owned by ebi-gxa
Repository scanpy_run_fdg revision be019b069e31 owned by ebi-gxa
Repository scanpy_integrate_bbknn revision c9da9192eee5 owned by ebi-gxa
Repository scanpy_run_diffmap revision 79cc06a557b0 owned by ebi-gxa
Repository scanpy_normalise_data revision 3027cb62adbd owned by ebi-gxa
Repository scanpy_filter_genes revision cc64914b0cf4 owned by ebi-gxa
Repository scanpy_scale_data revision 4cc9362782b4 owned by ebi-gxa
Repository scanpy_read_10x revision 078aa23c9374 owned by ebi-gxa
Repository scanpy_find_variable_genes revision 64dd8bb151e1 owned by ebi-gxa
Repository scanpy_regress_variable revision 0bab2ae44e7a owned by ebi-gxa
Repository scanpy_run_paga revision b2768cae00a1 owned by ebi-gxa
Repository scanpy_compute_graph revision 22bd5861706d owned by ebi-gxa
Repository scanpy_find_cluster revision 36735850e461 owned by ebi-gxa
Repository scanpy_run_umap revision ea91cfd0444e owned by ebi-gxa
Repository scanpy_find_markers revision d8f5224005bb owned by ebi-gxa
Repository scanpy_integrate_harmony revision c354af93f567 owned by ebi-gxa
Repository scanpy_plot_embed revision 7d5c97823f8b owned by ebi-gxa
Repository scanpy_run_pca revision 4428dba93375 owned by ebi-gxa
Repository scanpy_integrate_mnn revision ff6decc0f432 owned by ebi-gxa
Repository scanpy_multiplet_scrublet revision 53ce0e336840 owned by ebi-gxa

Categories
Transcriptomics - Tools for use in the study of Transcriptomics.
Sequence Analysis - Tools for performing Protein and DNA/RNA analysis
RNA - Utilities for RNA