FASTQ File

Type: object

A FASTQ file containing a collection of biological sequences with quality scores, typically corresponding to experimental data.

 No Additional Properties

root $schema
Type: string

The schema to use.

root fastq_file

root fastq_file allOf item 0
Type: object

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

The compression format.

Must be one of:

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

root fastq_file allOf item 0 gzindex
Type: object

Index file for the block Gzip compression. If present, compression should be "bgzip".

root fastq_file allOf item 0 gzindex resource
Type: object

root fastq_file allOf item 0 gzindex resource path
Type: string

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

root fastq_file allOf item 0 gzindex 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 fastq_file allOf item 0 index
Type: object

Index file for the sequences. If present, compression should be "none" or "bgzip".

root fastq_file allOf item 0 index resource
Type: object

root fastq_file allOf item 0 index resource path
Type: string

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

root fastq_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 fastq_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 fastq_file allOf item 0 other_data resource
Type: object

root fastq_file allOf item 0 other_data resource path
Type: string

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

root fastq_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 fastq_file allOf item 0 quality_encoding
Type: enum (of string)

Encoding used for the base quality scores in a FASTQ file.

Must be one of:

  • "phred"
  • "solexa"
  • "illumina"

root fastq_file allOf item 0 type
Type: enum (of string)

Type of sequence in the file.

Must be one of:

  • "DNA"
  • "RNA"
  • "AA"
root fastq_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 fastq_file allOf item 1 if
Type: object

The following properties are required:

  • index
root fastq_file allOf item 1 then
Type: object

root fastq_file allOf item 1 then compression
Type: enum (of string)

Must be one of:

  • "none"
  • "bgzip"
root fastq_file allOf item 2
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 fastq_file allOf item 2 if
Type: object

The following properties are required:

  • gzindex
root fastq_file allOf item 2 then
Type: object

root fastq_file allOf item 2 then compression
Type: const
Specific value: "bgzip"

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.