R-universe search: topic:diffusion-maps

Showing 2 of total 2 results (show query)

bioc

destiny:Creates diffusion maps

Create and plot diffusion maps.

Maintained by Philipp Angerer. Last updated 5 months ago.

cellbiology cellbasedassays clustering software visualization diffusion-maps dimensionality-reduction cpp

82 stars 11.44 score 792 scripts 1 dependents

rezakj

iCellR:Analyzing High-Throughput Single Cell Sequencing Data

A toolkit that allows scientists to work with data from single cell sequencing technologies such as scRNA-seq, scVDJ-seq, scATAC-seq, CITE-Seq and Spatial Transcriptomics (ST). Single (i) Cell R package ('iCellR') provides unprecedented flexibility at every step of the analysis pipeline, including normalization, clustering, dimensionality reduction, imputation, visualization, and so on. Users can design both unsupervised and supervised models to best suit their research. In addition, the toolkit provides 2D and 3D interactive visualizations, differential expression analysis, filters based on cells, genes and clusters, data merging, normalizing for dropouts, data imputation methods, correcting for batch differences, pathway analysis, tools to find marker genes for clusters and conditions, predict cell types and pseudotime analysis. See Khodadadi-Jamayran, et al (2020) <doi:10.1101/2020.05.05.078550> and Khodadadi-Jamayran, et al (2020) <doi:10.1101/2020.03.31.019109> for more details.

Maintained by Alireza Khodadadi-Jamayran. Last updated 9 months ago.

10xgenomics 3d batch-normalization cell-type-classification cite-seq clustering clustering-algorithm diffusion-maps dropout icellr imputation intractive-graph normalization pseudotime scrna-seq scvdj-seq singel-cell-sequencing umap cpp

121 stars 5.56 score 7 scripts 1 dependents