fill_missing_abundance {tidybulk} | R Documentation

## Fill transcript abundance if missing from sample-transcript pairs

### Description

fill_missing_abundance() takes as input a 'tbl' formatted as | <SAMPLE> | <TRANSCRIPT> | <COUNT> | <...> | and returns a 'tbl' with new observations

### Usage

    fill_missing_abundance(
      .data,
      .sample = NULL,
      .transcript = NULL,
      .abundance = NULL,
      fill_with
    )

    ## S4 method for signature 'spec_tbl_df'
    fill_missing_abundance(
      .data,
      .sample = NULL,
      .transcript = NULL,
      .abundance = NULL,
      fill_with
    )

    ## S4 method for signature 'tbl_df'
    fill_missing_abundance(
      .data,
      .sample = NULL,
      .transcript = NULL,
      .abundance = NULL,
      fill_with
    )

    ## S4 method for signature 'tidybulk'
    fill_missing_abundance(
      .data,
      .sample = NULL,
      .transcript = NULL,
      .abundance = NULL,
      fill_with
    )

### Arguments

`.data` | A 'tbl' formatted as | <SAMPLE> | <TRANSCRIPT> | <COUNT> | <...> |
`.sample` | The name of the sample column
`.transcript` | The name of the transcript column
`.abundance` | The name of the transcript abundance column
`fill_with` | A numerical abundance with which fill the missing data points

### Details

This function fills the abundance of missing sample-transcript pair using the median of the sample group defined by the formula

### Value

A 'tbl' non-sparse abundance

A 'tbl' with filled abundance

A 'tbl' with filled abundance

A 'tbl' with filled abundance

### Examples

    tidybulk::se_mini %>% tidybulk() %>% fill_missing_abundance( fill_with = 0)

[Package tidybulk version 1.4.0 Index]