list.responses.factor {netresponse} | R Documentation

## List significant responses

### Description

List significantly associated responses for all factors and levels in the given annotation matrix

### Usage

    list.responses.factor(
      annotation.df,
      models,
      method = "hypergeometric",
      min.size = 2,
      qth = Inf,
      verbose = TRUE,
      data = NULL,
      rounding = NULL
    )

### Arguments

`annotation.df` | annotation data.frame with discrete factor levels, rows named by the samples
`models` | List of models. Each model should have a sample-cluster assignment matrix qofz, or a vector of cluster indices named by the samples.
`method` | method for enrichment calculation
`min.size` | minimum sample size for a response
`qth` | q-value threshold
`verbose` | verbose
`data` | data (samples x features; or a vector in univariate case)
`rounding` | rounding digits

### Value

Table listing all associations between the factor levels and responses

### Author(s)

Contact: Leo Lahti leo.lahti@iki.fi

### References

See citation('netresponse')

[Package netresponse version 1.54.0 Index]