Alignment File

Title
Alignment File
Description
A file containing alignment data in bam format.
Required
award, content_type, controlled_access, file_format, file_set, filtered, lab, md5sum, redacted, reference_files
Identifying Properties
accession, aliases, alternate_accessions, md5sum, uuid
array[string]
Lab specific identifiers to reference an object.
The analysis step version of the file.
string
Genome assembly applicable for the annotation data.
Grant associated with the submission.
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
The file format or extension of the file.
array[linkto]
Documents that describe the file format and fields of this file.
The file set that this file belongs to.
integer
File size specified in bytes.
boolean
Indicates whether reads that did not pass a filtering step, such as PCR duplicates, have been removed from the file.
Lab associated with the submission.
string
The md5sum of the file being transferred.
boolean
Indicates whether the alignments data have been sanitized (redacted) to prevent leakage of private and potentially identifying genomic information.
array[linkto]
Link to the reference files used to generate this file.
string
Original name of the file.
string
Additional information specified by the submitter to be displayed as a comment on the portal.
string
The annotation and version of the reference resource.