matrixize_markers {clustifyr} | R Documentation

## Convert candidate genes list into matrix

### Description

Convert candidate genes list into matrix

### Usage

    matrixize_markers(
      marker_df,
      ranked = FALSE,
      n = NULL,
      step_weight = 1,
      background_weight = 0,
      unique = FALSE,
      metadata = NULL,
      cluster_col = "classified",
      remove_rp = FALSE
    )

### Arguments

`marker_df` | dataframe of candidate genes, must contain "gene" and "cluster" columns, or a matrix of gene names to convert to ranked
`ranked` | unranked gene list feeds into hyperp, the ranked gene list feeds into regular corr_coef
`n` | number of genes to use
`step_weight` | ranked genes are tranformed into pseudo expression by descending weight
`background_weight` | ranked genes are tranformed into pseudo expression with added weight
`unique` | whether to use only unique markers to 1 cluster
`metadata` | vector or dataframe of cluster names, should have column named cluster
`cluster_col` | column for cluster names to replace original cluster, if metadata is dataframe
`remove_rp` | do not include rps, rpl, rp1-9 in markers

### Value

matrix of unranked gene marker names, or matrix of ranked expression

### Examples

    matrixize_markers(pbmc_markers)

[Package clustifyr version 1.6.0 Index]