newCountDataSetFromHTSeqCount {DESeq} | R Documentation

## Create a new CountDataSet from count files generated with htseq-count

### Description

Use this function to start a DESeq analysis if you used htseq-count to count your reads.

### Usage

    newCountDataSetFromHTSeqCount(sampleTable, directory = ".")

### Arguments

`sampleTable` | A data frame with three or more columns. Each row describes one sample. The first column is the sample name, the seond column the file name of the count file generated by htseq-count, and the remaining columns are sample meta data. If the meta data consists of only a single column (i.e., three columns in total), this is used as 'condition' factor.
`directory` | The directory relative to which the filenames are specified.

### Value

A CountDataSet object.

### Author(s)

Simon Anders

### References

See http://www-huber.embl.de/users/anders/HTSeq/ for htseq-count.

### See Also

`newCountDataSet`

[Package DESeq version 1.39.0 Index]