Uploading data

To upload your raw data to Flow, first navigate to the "Upload data" page under "Actions" in the leftmost menu.

Here, you are able to upload demultiplexed fastq files, multiplexed fastq files and other data types.

Demultiplexed fastq files

Simply select whether your sample is paired or single-end and click in the dashed box to choose your files. You can select multiple files at once to upload.

Once you've chosen your files you are able to add your metadata. It is most important to give your sample a Name, choose the Category of sample (ie. the method used like RNA-Seq) and select the Organism your sample was generated from. The organisms that are available are defined by the admins. For certain sample categories other metadata is required, for example 5' barcode sequences are always required for CLIP-Seq samples.

You can read more about the default metadata attributes here.

If you are uploading a lot of files in one go you might prefer to upload your metadata as an excel spreadsheet. To do this, download the annotation sheet template for the type of sample you are uploading - add an extra column called "File" and put the file name in this column. Everything else is filled out as normal. Once you're done drag the annotation sheet into the "Auto-fill from annotation sheet" box.

Multiplexed fastq files

Sometimes your data might have complex barcoding that is not handled by your sequencing facility, therefore we provide the option to upload multiplexed data that can be demultiplexed on Flow.

For multiplexed data, annotation is provided as an excel spreadsheet, with a single spreadsheet per sample category. For example, if your multiplexed fastq contains both CLIP-Seq and RNA-Seq you would provide one annotation spreadsheet for the CLIP-Seq samples and one for the RNA-Seq samples.