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Table of Contents

	Annotation term	Additional Details
1	fileFormat	Accepted file formats include "fastq", "bam", and "cram". If provided raw data are “bam” or “cram” format, only files that have not undergone any additional filtering (i.e. retains unmapped reads, have not been trimmed, etc) will be eligible for processing.
2	individualID	Individual IDs are necessary to create the sample sheets.
3	specimenID	specimen IDs are necessary to interpret the analysis.
4	Assay	Choose between Bulk RNA Seq or Single Cell RNA Seq.
5	Species	The corresponding genome requires knowledge of the species.
6	libraryPreparationMethod	This refers to the name of the library preparation, such as KAPA Hyper PCR 3.
7	Platform	This refers to the name of the platform used, for example, illumina.
8	readPair	Specify whether the read pair is 1 or 2.
9	specimenPreparationMethod	Minimize RNA degradation with methods such as flash freezing or RNALater. FFPE is not recommended.
10	tumorType	If the tissue is normal, indicate "not applicable." Otherwise, specify the tumor type.
11	isStranded*	This answer should be either "yes" or "no."
12	readPairOrientation*	Indicate the read pair orientation, such as forward or reverse.

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