iCCL1

To install:

if (!require(devtools)) {
  install.packages("devtools")
}

devtools::install_github("ari7cr/iCCL1")
library(iCCL1)

Flowchart:

Functions:

1. predictdimensions(SeuratObject) -> gives back an estimated Dimension to run clustering for

2. iCCL(SeuratObject, x, y)
   Basically 1-command, multi-dimension UMAP Seurat clustering for your SeuratObject from your range of choice: x (>3) to y.

This Package is currently undergoing maintenace for improving
Planned for iCCL2: t-SNE adaption

Long-Term goals: Clustering Scores (ideas and participation very much appreciated!)

This package builds upon Seurat methods: https://www.biorxiv.org/content/10.1101/2020.10.12.335331v1

The method which predictdimension() builds on was developed by Harvard Chan Bioinformatics Core: https://bioinformatics.sph.harvard.edu/

Arian Abbasi
[email protected]
University of Cologne