How do I download from BaseSpace on Illumina?

How to download data from Run

Table of Contents

Choose Run. Select the “Runs” icon and select the desired run.
Download. Select the “Download Run” button.
Download. Select the “Download” button.
Choose Data Option. Select the desired data option. If SAV data is needed, that option is selected.

Is Illumina BaseSpace free?

BaseSpace offers a limited 30-day free trial for new accounts. New free trial accounts have access to the following features. 1 TB free storage—Additional storage can be purchased with promotional iCredits.

How can I download Illumina data?

Download Data Sets

Select the My Data drop-down menu, and then select Biosamples.
Select the desired biosample.
Select the Datasets tab.
[Optional] Select a data set name to view a list of file details.
Select the checkboxes for the desired data sets.

How do I download raw data from BaseSpace?

To download your raw data (1 forward and 1 reverse fastq for each sample), you can either use the “Download Project” button on the project screen, or you can select individual samples and then use the “Download Samples” button.

How do I transfer data from BaseSpace?

Use the file uploader when you want to analyze files generated outside of BaseSpace Sequence Hub, or to attach other information related to the project.

Open the project.
From the project, select File, point to Upload, and then select Files.
Select type of files to upload.

What is Illumina BaseSpace?

What is BaseSpace? BaseSpace is a powerful website where biologists and informaticians can easily store, analyze, and share genetic data. Sequencing data from Illumina instruments, including MiSeq and HiSeq, are streamed in real-time over the Internet to BaseSpace.

How do you use Basemount?

Tutorial Videos

Step 1 – Install. “`
Step 2 – Import Data to Account. In a browser, starting from basespace.illumina.com.
Step 3 – First Time Launch. # Mount your BaseSpace account.
Step 4 – Projects, Runs, Samples.
Step 5 – AppSessions and AppResults.
Step 6 – First Time Launch.
Step 7 – Metadata.
Step 8 – File Upload.

How do I upload a BaseSpace run?

What is BaseSpace sequence hub?

BaseSpace Sequence Hub is a cloud environment for analysis, storage, and sharing of genomics data. Stream data directly from your sequencing run and then use apps to analyze that data. BaseSpace apps perform alignment, variant calling, data classification and visualization, and interpretation of results.

What is BaseMount?

BaseMount is a tool to mount your BaseSpace Sequence Hub data as a Linux file system. You can navigate through projects, samples, runs and app results and interact directly with the associated files exactly as you would with any other local file system.

How do I upload a sample sheet to BaseSpace?

Use BaseSpace Sequence Hub to edit a sample sheet and requeue:

After logging in to your BaseSpace account, select the RUNS tab at the top of the page.
Select the blue hyperlink of the run you wish to requeue.
Select the hourglass symbol drop-down menu, then select Requeue and then Sample Sheet.

How do I upload a Fastq file to BaseSpace?

If you are uploading a FASTQ file, do as follows.

Select Select Biosample, then select or create a biosample that the FASTQ dataset will be associated with.
Enter a library name.
Select a prep kit.
[Optional] Enter a position name.
Select Finish Upload.

How do I upload data to BaseSpace?

The following steps explain the process:

Choose Project. You can choose any desired Project that you have write access to or create a new project by clicking on New Project…
Upload Files.
Monitor Upload Progress.
Add to Basespace Hub.

What is BaseSpace CLI?

The BaseSpace Sequence Hub CLI supports scripting and programmatic access to BaseSpace Sequence Hub for automation, bulk operations, and other routine functions. It can be used independently or in conjunction with BaseMount.

How do I get BaseSpace access token?

How do I generate a BaseSpace Access Token?

Log into your BaseSpace account.
Click Apps in the main menu.
Click App Developer Portal on the Apps page.
In the top menu, click My Apps.
Follow the instructions to create a new app.
Once created, open the app, and go to the Credentials page to retrieve the Access Token.