Table 4 Overview of the header variables of the GTrack format
From: Identifying elemental genomic track types and representing them uniformly
Header variable | Description | Default value |
|---|---|---|
GTrack version | Version of the GTrack specification used | 1.0 |
Track type | Track type of the GTrack file | segments |
Value type | The kind of content accepted in the value column | number |
Value dimension | The dimension of the content in the value column | scalar |
Undirected edges | Whether all edges are undirected | false |
Edge weights | Whether the edges have weights | false |
Edge weight type | The kind of content accepted as edge weights | number |
Edge weight dimension | The dimension of the edge weights | scalar |
Uninterrupted data lines | Whether it is guaranteed that the data lines are not interrupted by bounding region specification lines or comments | false |
Sorted elements | Whether it is guaranteed that all bounding regions and track elements come in sorted order | false |
No overlapping elements | Whether it is guaranteed that no two track elements overlap | false |
Circular elements | Whether any track elements or bounding regions cross the coordinate borders of a circular sequence | false |
1-indexed | Whether the coordinates start at 1 (0 if false) | false |
End inclusive | Whether the coordinates specified in the end column is included in intervals | false |
*Value column | The name of the column to be used for as the 'value' column | value |
*Edges column | The name of the column to be used for as the 'edges' column | edges |
*Fixed length | Fixed length of all track elements | 1 |
*Fixed gap size | Fixed-size gaps between all neighboring track elements | 0 |
*Fixed-size data lines | Whether each data line has an exact size in terms of number of characters | false |
*Data line size | The size of each data line in terms of number of characters | 1 |
*GTrack subtype | The name of the subtype of the GTrack format specification used for the file | (empty string) |
*Subtype version | The version of the GTrack subtype | 1.0 |
*Subtype URL | URL to a GTrack file used as a specification/model for the GTrack subtype | (empty string) |
*Subtype adherence | Regulates the way a GTrack file may override the subtype specification | free |