GFF file

Type: object

A file in the general feature transfer (GFF) format, containing the coordinates of annotated features in relation to a reference sequence.

 No Additional Properties

root $schema
Type: string

The schema to use.

root gff_file

root gff_file allOf item 0
Type: object

root gff_file allOf item 0 compression
Type: enum (of string)

The compression format.

Must be one of:

  • "none"
  • "gzip"
  • "bzip2"
  • "bgzip"

root gff_file allOf item 0 format
Type: enum (of string)

The file format. This is technically unnecessary as GFF2 does not have an initial comment line specifying the GFF version, whereas GFF3 does; nonetheless, this format property is still required here, to avoid any ambiguity. Note that the GTF format is the same as GFF2.

Must be one of:

  • "GFF2"
  • "GFF3"

root gff_file allOf item 0 index
Type: object

Tabix file to index the features. If present, the features in this GFF file must be sorted by their genomic position, and compression must be set to "bgzip".

root gff_file allOf item 0 index resource
Type: object

root gff_file allOf item 0 index resource path
Type: string

Relative path of the resource from the root of the project directory.

root gff_file allOf item 0 index resource type
Type: enum (of string)

Type of file. Local files should be present in the same project directory.

Must be one of:

  • "local"

root gff_file allOf item 0 other_data
Type: object

Location of additional metadata for this file, typically stored as a list (via the simple_list schema). Ommitted if no other metadata is provided.

root gff_file allOf item 0 other_data resource
Type: object

root gff_file allOf item 0 other_data resource path
Type: string

Relative path of the resource from the root of the project directory.

root gff_file allOf item 0 other_data resource type
Type: enum (of string)

Type of file. Local files should be present in the same project directory.

Must be one of:

  • "local"
root gff_file allOf item 1
Type: object

If the conditions in the "If" tab are respected, then the conditions in the "Then" tab should be respected. Otherwise, the conditions in the "Else" tab should be respected.

root gff_file allOf item 1 if
Type: object

The following properties are required:

  • index
root gff_file allOf item 1 then
Type: object

root is_child
Type: boolean Default: false

Is this a child document, only to be interpreted in the context of the parent document from which it is linked? This may have implications for search and metadata requirements.

root md5sum
Type: string

MD5 checksum for the file.

root path
Type: string

Path to the file in the project directory.