Fastq File Annotation Template

A template outlining metadata to be collected and applied to fastq file entities as annotations in Synapse.

Instructions

This template collects file-level metadata and curates your file with this critical information thereby enabling discoverability, SQL queries, and overall organization and metrics calculations of your data files.

Attribute	Description	Required	Valid Values
assay	The technology used to generate the data in this file. Select all assays that apply. e.g., the GEX fastq files from a CITE-seq experiment should be labeled with both 'scRNASeq' and 'CITESeq'.	TRUE	scRNASeq, CITESeq, snRNASeq, snATACSeq, RNASeq, ASAPSeq, VDJSeq, scVDJSeq, feature barcode sequencing, WES, WGS
fileFormat	Standard file format name or file extension	TRUE	fastq
libraryID	A library label or name, unique within an experiment, used to distinguish sequencing libraries.	TRUE
readLength	The number of base pairs (bp) sequenced for reads in a fastq file. If value unknown, enter '-1'.	FALSE
specimenModality	Label assigned to experimental data files indicating whether the data contained corresponds to a single or multiple biospecimens	TRUE	multispecimen, single specimen, unknown