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Hi all,
I am attempting to use ArchR to analyze combined scATAC-seq and scRNA-seq generated with the 10x Multiome kit. I have 8 different samples and have successfully created Arrow files and added…
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Hi @All,
Just like #364 question about the peak differential analysis.
I want to study the differential region between treat and control, however i am unable to locate the function that ma…
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Hi,
I just want to say that I've read your paper recently and I'm grateful for the work you've done. One discrepancy I've noticed is that there is no code provided for the QC of the fragment files.…
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Hi, author. I'm interested in your work. But I don't see dataset. Would you mind sharing on Github. Thank you very much if you can
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Would it be possible to add a function to combine multiple gene scores? Such as the addModuleScore function in Seurat?
https://rdrr.io/github/satijalab/seurat/man/AddModuleScore.html
Thanks!
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Hi Team,
I am looking for the fragment data generated and analyzed in your study "Conserved and divergent gene regulatory programs of the mammalian neocortex" (https://doi.org/10.1038/s41586-023-0681…
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library(ggplot2)
library(cowplot)
library(scales)
library(reshape2)
library(data.table)
library(ape)
library(phyloGLM)
tree=read.tree(system.file("extdata", "sampleTree.nh", package="phyloGLM…
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I am running ArchR (v1.0.1, date: 2020-11-23, development version that I installed in January) and Seurat (v3.2.3). I am trying to do unconstrained integration but getting the following error.
```
…
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Hello,
I'm looking at the peak co-accessibility section and i was wondering whether you are planning to add functions to calculate differential peak co-accessibility?
Thanks a lot!
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Hi guys, looking for some help on an issue I cannot seem to solve. I have been following the integration pipeline (https://stuartlab.org/signac/articles/merging) for a set of 19 samples, and am havi…