backspin: Backspin
In scfurl/m3addon: This package adds to the popular "monocle3"

The BackSPIN biclustering algorithm was developed by Amit Zeisel and is described in Zeisel et al. Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq Science 2015 (PMID: 25700174, doi: 10.1126/science.aaa1934). Please cite this paper if you use the BackSPIN algorithm in your work. Original MATLAB implementation by Amit Zeisel. This repo contains a standalone command-line version of BackSPIN, implemented in Python by Gioele La Manno.

backspin(
  data,
  numLevels = 2,
  first_run_iters = 10,
  first_run_step = 0.05,
  runs_iters = 8,
  runs_step = 0.25,
  split_limit_g = 2,
  split_limit_c = 2,
  stop_const = 1.15,
  low_thrs = 0.2,
  verbose = T
)

`data`	Rows should be genes and columns single cells/samples.
`first_run_iters`	Number of the iterations used in the preparatory SPIN. Default 10
`first_run_step`	the step parameter passed to _generate_widlist for the preparatory SPIN. Default 0.05
`runs_iters`	the iterations parameter passed to the _divide_to_2and_resort. influences all the SPIN iterations except the first
`verbose`	Print the extra details of what is happening
`levels`	The number of nested splits that will be tried by the algorithm
`runs_step:`	the step parameter passed to the _divide_to_2and_resort. influences all the SPIN iterations except the first
`split_limit_g:`	If the number of specific genes in a subgroup is smaller than this number splitting of that subgrup is not allowed
`split_limit_c:`	If the number cells in a subgroup is smaller than this number splitting of that subgrup is not allowed
`stop_const:`	minimum score that a breaking point has to reach to be suitable for splitting
`low_thrs:`	genes with average lower than this threshold are assigned to either of the splitting group reling on genes that are higly correlated with them