Home

Sequence File

Schema Directory
Title
Sequence File
Description
A file containing sequencing results in bam, fastq, or pod5 formats.
Required
award, content_type, controlled_access, file_format, file_set, lab, md5sum, sequencing_platform, sequencing_run
Identifying Properties
accession, aliases, alternate_accessions, md5sum, uuid
Highlight properties with matching names, “title” attributes, or an enum of those properties. Matching properties might be non-submittable.
array[string]
Lab specific identifiers to reference an object.
linkto
The analysis step version of the file.
linkto
Grant associated with the submission.
array[string]
The chemical modifications to bases in a DNA sequence that are detected in this file.
string
The type of content in the file.
boolean
Boolean value, indicating the file being controlled access, if true.
array[string]
Identifiers from external resources that may have 1-to-1 or 1-to-many relationships with IGVF file objects.
array[linkto]
The files participating as inputs into software to produce this output file.
boolean
A boolean indicating whether the file has been dervided manually without automated computational methods.
string
A plain text description of the object.
array[linkto]
Documents that provide additional information (not data file).
string
A link to the resource where the file is externally hosted.
boolean
Indicates whether the file is externally hosted and not stored on portal.
string
The file format or extension of the file.
array[linkto]
Documents that describe the file format and fields of this file.
linkto
The file set that this file belongs to.
integer
File size specified in bytes.
string
The alphanumeric identifier for the flowcell of a sequencing machine.
string
The read type of the file. Relevant only for files produced using an Illumina sequencing platform.
string
An Illumina index associated with the file.
linkto
Lab associated with the submission.
integer
An integer identifying the lane of a sequencing machine.
string
The md5sum of the file being transferred.
array[string]
The read names of a sequence file based on how it will be used by uniform pipelines.
string
A reagent kit used with a library to prepare it for sequencing.
linkto
The measurement device used to produce sequencing data.
integer
An ordinal number indicating which sequencing run of the associated library that the file belongs to.
string
Original name of the file.
string
Additional information specified by the submitter to be displayed as a comment on the portal.