djvdj

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trim dependencies

2

* move as many as possible to Suggests and use conditionally

sheridar

Potential Features

3

- [ ] Antigen affinity score * Incorporates AVID-seq counts and total receptor counts (CITE-seq/GEX counts) - [x] Add VDJ data from cellranger to Seurat object - [x] Receptor diversity...

sheridar

It would be also interesting if you could somehow integrate a function for TCR antigen prediction by comparing the TCR seqs with published TCR antigen-specific datasets, something similar to TCRmatch,...

Ahmedalaraby20

Get complet TCR seq for cloning seq

sheridar

ROC analysis of CITE-seq / AVID-seq reagents

2

Thoughts on [ROC analysis](https://en.wikipedia.org/wiki/Receiver_operating_characteristic) of protein-DNA tags as classifiers. The question is how well a given reagent performs as a classifer relative to gene expression classifications (i.e., assuming these are...

jayhesselberth

B cell lineaging/clustering

3

* Best methods for clustering

sheridar

Antigen affinity score

1

sheridar

wrapper for export to ucsc cell browser

3

Would this be of some interest?

raysinensis

Identify useful data sets

4

- Probably don't want to bundle AVID-seq data until it's published. - LIBRA-seq? - Other large TCR or BCR sequencing data sets?

jayhesselberth

Have been thinking lately about doing a deep mutational scan on the MD4 BCR. Would be different way to see if changes in affinity can be accurately measured by AVID-seq.

jayhesselberth