Webb24 nov. 2024 · Hello, I have used "plot_pseudotime_heatmap" to find genes that change as a function of pseudotime. Because I have several genes (around 1000 genes) on the heatmap, the name of the genes that cluster together is not readable. Webb28. Pseudotime analysis. Due to a discontinuation of Matrix.utils package, monocle3 can not be installed and tested in a CI manner. Until this is resolved, this function will not be available in any official and developmental-stable release. Pseudotime analysis is, perhaps, one of the major analysis that can be carried out in SC data.

Plot_pseudotime_heatmap in Monocle3 - Google Groups

Webb12 dec. 2013 · What I want to do is to plot heat map with my own assigned color scale and scheme: When the value is 0 set it into white. When the value is == 1 set it into black. When the value is > 1 set it into shade of … curved concrete edging

plot_pseudotime_heatmap function #298 - Github

WebbThe package Monocle provides tools for analyzing single-cell expression experiments. Monocle introduced the strategy of ordering single cells in pseudotime, placing them along a trajectory corresponding to a biological process such as cell differentiation by taking advantage of individual cell's asynchronous progression of those processes. Webbplot_coexpression_matrix: Not sure we're ready to release this one quite yet: Plot the... plot_complex_cell_trajectory: Plots the minimum spanning tree on cells. plot_genes_branched_heatmap: Create a heatmap to demonstrate the bifurcation of gene... WebbValues smaller than this are set to the min.} \item{trend_formula}{A formula string specifying the model used in fitting the spline curve for each gene/feature.} \item{return_heatmap}{Whether to return the pheatmap object to the user.} \item{cores}{Number of cores to use when smoothing the expression curves shown in … curved concrete edging walmart