Dear Dekosky Lab,
Great paper! I was interested in your technology and downloaded data from PRJNA827461 to have a look myself.
After parsing through my own pipeline, I found that the 'TCR_presort_sequences' amounted to around 60,000 clonotypes and wondered if this was the entire repertoire from Donor 1?
Furthermore, when looking at the paired clonotypes there seems to be many clones where the same beta chain is paired with many alpha chains, which we wouldn't expect to see in a typical repertoire (max 2 given dual alpha chains).
I have attached the clonotype table I produced from the data.
Is this something you usually see in the data, and do you have a fidelity metric that you apply to the data?
Many thanks.
SRR19119688_clonotypes.xlsx
Dear Dekosky Lab,
Great paper! I was interested in your technology and downloaded data from PRJNA827461 to have a look myself.
After parsing through my own pipeline, I found that the 'TCR_presort_sequences' amounted to around 60,000 clonotypes and wondered if this was the entire repertoire from Donor 1?
Furthermore, when looking at the paired clonotypes there seems to be many clones where the same beta chain is paired with many alpha chains, which we wouldn't expect to see in a typical repertoire (max 2 given dual alpha chains).
I have attached the clonotype table I produced from the data.
Is this something you usually see in the data, and do you have a fidelity metric that you apply to the data?
Many thanks.
SRR19119688_clonotypes.xlsx