Sequence Data

Sequence Data stores the sequencing data files uploaded by the users and displays them in reverse chronological order. Click the icon in the Utilities menu to access the Sequence Data window (Fig. 1). The paginated window displays 10 samples, by default, per page and can be increased to show 20, 40, 60, 80, 100 samples. The search box (Fig. 1) on the top right corner allows users to filter samples with tags, organism names, or pairing information. Validation failed samples are greyed out and displayed with a “Validation Failed” message. The failed samples are not available for selection and should be deleted from the platform by the user. Validation passed samples are shown with a green check . The quality (fastqc) report is available for the validated samples (Fig. 1).

Fig. 1. List view of the sequencing files from Sequence Data. a.) Sequence Data tab. b.) Search field. c.) The Fastqc Report

The list view shows eight fields :

Name: Derived sample name from the file name by the platform

Example:

Sequencing Type

File Name

Sample Name

Single End

seq_file.fastq

seq_file

Paired End

seq_file_1.fastq

seq_file_2.fastq

seq_file

Organism: Organism name, provided by the user during upload
Tag: Tag name, provided by the user during upload
Fastqc Reports: The FastQC quality report of each sample
File(s): The actual file name(s) associated with the sample name
Paired: Sample pairing information, provided by the user during upload
Owner: Name of the user, who uploaded the samples
Date: Date of upload

Additional sample details can be accessed by clicking on the sample name. Click the icon on the top right corner of the sample window (Fig. 2) to delete the selected sample. Click theicon to go back to the Sequence Data window.

Fig. 2. Sample (sequence data) window.

Revision #6
Created 24 January 2022 13:35:56 by Kshama
Updated 3 March 2022 03:35:52 by Stanome