Gao issues

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Gao

All cells have the same value of blacklist_ratio.

Hi, when I run: # compute nucleosome signal score per cell pbmc

In SingleExIPlot(type = type, data = data[, x, drop = FALSE], idents = idents, : All cells have the same value of blacklist_ratio.

R version 4.3.3 (2024-02-29) -- "Angel Food Cake" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-conda-linux-gnu (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY....

bug

Downstream analysis tutorial

Hi Kai, thank you so much for this wonderful tool! Just one question, Can I use snapATAC tutorial for snapATAC2? As the snapATAC2 doesn't have tutorials for downstream analysis.

Gao

All cells have the same value of blacklist_ratio.

In SingleExIPlot(type = type, data = data[, x, drop = FALSE], idents = idents, : All cells have the same value of blacklist_ratio.

Downstream analysis tutorial

> ggmotif_plot(toPWM(reverseComplement(motifs[[closest_match1]]),type = "prob")) Error in normargPfm(x) : invalid PFM 'x': not an integer matrix