annotation

Type Members

1. case class Exon(start: Int, end: Int) extends Product with Serializable

   

2. case class Feature(contig: String, source: String, feature: String, start: Int, end: Int, score: Option[Double], strand: Option[Boolean], frame: Option[Char], attributes: Map[String, String]) extends Product with Serializable

   

   This class can store a gtf or gff line.

   This class can store a gtf or gff line.

   Created by pjvanthof on 14/05/2017.

3. case class Gene(name: String, contig: String, start: Int, end: Int, strand: Boolean, transcripts: List[Transcript]) extends Product with Serializable

   

   Created by pjvanthof on 16/05/2017.

4. case class Transcript(name: String, transcriptionStart: Int, transcriptionEnd: Int, codingStart: Option[Int], codingEnd: Option[Int], exons: List[Exon]) extends Product with Serializable