Monocle3 partition (version 0.1.4+galaxy0)

Input object in RDS format:

Format of input object:

Format of output object:

Print introspective information of output object:

The dimensionality reduction to base the clustering on.:

Number of nearest neighbours used for Louvain clustering.:

When this option is set, calculate the weight for each edge in the kNN graph.:

The number of iterations for Louvain clustering.:

Resolution of clustering result, specifying the granularity of clusters. Not used by default and the standard igraph louvain clustering algorithm will be used.:

The q-value threshold used to determine the partition of cells.:

Emit verbose output:

Monocle3 clustering of cells (cluster_cells)

Cluster the primary dimensionality reduced space

More information can be found at https://cole-trapnell-lab.github.io/monocle3/ and https://github.com/ebi-gene-expression-group/monocle-scripts

Version history 0.1.5+galaxy1: Updated to monocle3-cli 0.0.9 for plot cells to allow for multiple genes plotting.

0.1.5+galaxy0: Updated to monocle3-cli 0.0.8 to add top marker genes and fix container plots for plotCells (only those two modules upgraded).

0.1.4+galaxy0: Updated to monocle3-cli 0.0.7 to fix bug with column headers in tsv.

0.1.3+galaxy0: Updated to monocle3-cli 0.0.5 to fix bug with tsv inputs.

0.1.2+galaxy0: Initial version based on monocle3-cli 0.0.3 and monocle3 0.1.2