Ray Fu

1. on different clustering, like clustree? 2. with different number of variable genes? check stability of calls

Build/check issues with R 4.1 on windows, which Bioconductor does not tolerate. Current version removed Seurat2 support.

should be pretty straightforward slot searching is already tentatively supported for Seurat objects

Via feature selection + subclustering/subsampling? interested in trying out http://www.rebeccabarter.com/blog/2020-03-25_machine_learning/ Also as an alternative method to find markers

wrapper for export to ucsc cell browser

3

Would this be of some interest?

10x data - multiplexed antigen recognition

2

A new way of exploring immunity: linking highly multiplexed antigen recognition to immune repertoire and phenotype [report](https://pages.10xgenomics.com/rs/446-PBO-704/images/10x_AN047_IP_A_New_Way_of_Exploring_Immunity_Digital.pdf) [data](https://support.10xgenomics.com/single-cell-vdj/datasets/3.0.2/vdj_v1_hs_aggregated_donor2) Binding specificity only carried as a binarized matrix, unfortunately.

raw data here https://www.ncbi.nlm.nih.gov/sra/?term=PRJNA578389 Custom code available upon request...

Latest Spaceranger 2.0 output structure change breaks `read10xVisium`

1

previously `tissue_positions_list.csv` is now `tissue_positions.csv` (also now with header)

test (and if needed fix) compatibility with plotly

5

for interactive integration with shiny