read_pathoscope_data {animalcules} | R Documentation

## Reads the data from PathoScope reports and returns a list of final guess relative abundance and count data

### Description

Reads the data from PathoScope reports and returns a list of final guess relative abundance and count data

### Usage

    read_pathoscope_data(
      input_dir = ".",
      pathoreport_file_suffix = "-sam-report.tsv",
      use.input.files = FALSE,
      input.files.path.vec = NULL,
      input.files.name.vec = NULL
    )

### Arguments

`input_dir` | Directory where the tsv files from PathoScope are located
`pathoreport_file_suffix` | PathoScope report files suffix
`use.input.files` | whether input dir to pathoscope files or directly pathoscope files
`input.files.path.vec` | vector of pathoscope file paths
`input.files.name.vec` | vector of pathoscope file names

### Value

List of final guess relative abundance and count data

[Package animalcules version 1.8.1 Index]