Description Usage Arguments Details Value Author(s) Examples
Subtitle
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 | ## S4 method for signature 'CIMseqConnections'
getData(x, n = NULL)
CIMseqConnections(singlets, multiplets, swarm, ...)
## S4 method for signature 'CIMseqSinglets,CIMseqMultiplets,CIMseqSwarm'
CIMseqConnections(
singlets,
multiplets,
swarm,
alpha = 0.01,
weightCut = 10,
expectedWeightCut = 0,
maxCellsPerMultiplet = 4,
depleted = F,
multiplet.factor = NA
)
|
singlets |
CIMseqSinglets; A CIMseqSinglets object. |
multiplets |
CIMseqMultiplets; A CIMseqMultiplets object. |
swarm |
CIMseqSwarm; A CIMseqSwarm object. |
alpha |
numeric; Vector of length 1 specifying the which p-values are considered significant. |
weightCut |
integer; Vector of length 1 specifying weights below which the p-value should not be calculated (set to non-zero for enrichment). |
expectedWeightCut |
integer; Vector of length 1 specifying expected weights below which the p-value should not be calculated (set to non-zero for depletion). |
maxCellsPerMultiplet |
integer; Vector of length 1 specifying the maximum size of a multiplet |
depleted |
logical; Set to TRUE to calculate depletion of connections rather than enrichment |
multiplet.factor |
numeric; Expected average size of multiplets. Used when ERCC controls are not provided. Should be estimated based on microscopy data. If it is not given, and no ERCC controls are provided, it will be estimated from the data (not recommended). |
Description
CIMseqConnections output.
Martin Enge
1 | #use demo data
|
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.