Single Cell ATAC-seq Quality Metric

Title
Single Cell ATAC-seq Quality Metric
Description
Schema for submission of a scATAC-seq uniform pipeline quality metric.
Version
v1
Required
analysis_step_version, award, lab, quality_metric_of
Identifying Properties
aliases, uuid
array[string]
Lab specific identifiers to reference an object.
The analysis step version of the quality metric.
object
object
object
object
The attached content.
Grant associated with the submission.
string
A plain text description of the object.
number
number
number
number
Lab associated with the submission.
number
number
Number of fragments mappig in multiple locations in the genome.
number
number
Barcodes matching the expected list of valid barcodes.
number
Potential mapping locations considered during alignment.
number
Barcodes adjusted to match valid entries in the onlist.
number
number
number
Reads successfully aligned to the reference genome.
number
Total successful alignments, including multiple mappings per read.
number
Total alignments where reads map to multiple locations.
number
Final count of fragments after deduplication and filtering.
number
Total count of sequencing reads processed.
number
Reads aligned to multiple locations in the genome.
number
Total alignments where reads map to a single location.
number
Reads aligned to a single location in the genome.
number
array[linkto]
The file(s) to which this quality metric applies.
string
Additional information specified by the submitter to be displayed as a comment on the portal.
number
Sum of uni-mappings and multi-mappings.
number
number
Number of fragments mapping to single location in the genome.
number