Background - science of tags
Tag plates are plates that contain small DNA sequences called tags (or barcodes, indexes...). The contents of these plates are added to samples in order to create libraries that can be sequenced.
Dual index tags are ones where a sample will be linked to two tags, called 'i7' and 'i5' (refers to the direction you're reading the DNA molecule), or sometimes referred to in Sequencescape as 'tag1' and 'tag2'.
In dual index tag plates, both i7 and i5 oligos are in the same well. i.e. well 'A1' will contain both an i7 and an i5 tag; B1 will contain 2 different ones, etc. They are always combined in the well - they don't come separately.
Background - tags in Sequencescape & Limber
Sequencescape represents dual index tag groups as 2 separate tag groups - one that contains the i7 tags, and one that contains the i5 tags. For example, see the following:
When importing ready-made libraries, using the Chromium library plate manifest
On the tagging screen linked above, there are two ways of selecting which tags you want. One is to scan a barcode on the actual physical tag plate you're using - see the 'Tag Plate' box. The other is to select the i7 and i5 tag groups that you are using - see the dropdowns further down.
Research questions
Is there any reason from a user point of view why there should be two tag group dropdowns instead of one, in the above mentioned tagging screen? This is a question for the lab users. Not sure who best to ask, but I think I have talked to Matt J (former bespoke team) about using this screen in the past - maybe a good place to start.
If answer to above is no, come up with a design for a combined i7 & i5 dual index tag group - either linking together the existing tag groups (using something more robust than the name), or creating a new model. It should be able to be used in the existing contexts:
replacing the two dropdowns on that tagging screen with one
Background - science of tags Tag plates are plates that contain small DNA sequences called tags (or barcodes, indexes...). The contents of these plates are added to samples in order to create libraries that can be sequenced.
Dual index tags are ones where a sample will be linked to two tags, called 'i7' and 'i5' (refers to the direction you're reading the DNA molecule), or sometimes referred to in Sequencescape as 'tag1' and 'tag2'.
In dual index tag plates, both i7 and i5 oligos are in the same well. i.e. well 'A1' will contain both an i7 and an i5 tag; B1 will contain 2 different ones, etc. They are always combined in the well - they don't come separately.
Background - tags in Sequencescape & Limber
Sequencescape represents dual index tag groups as 2 separate tag groups - one that contains the i7 tags, and one that contains the i5 tags. For example, see the following:
Tag groups are used in two features in Sequencescape:
On the tagging screen linked above, there are two ways of selecting which tags you want. One is to scan a barcode on the actual physical tag plate you're using - see the 'Tag Plate' box. The other is to select the i7 and i5 tag groups that you are using - see the dropdowns further down.
Research questions
Who the primary contacts are for this work Katy (PSD), Rich C (SSR)