-
I have multimodal 10x data (both RNA-seq and ATAC-seq measured from the same cells) and would like to use the "multomics" model (Fig. 2C in the PLoS Comp Bio paper) in which each cell is assigned to t…
-
Hi! I am a developer for HuBMAP Consortium and we use ArchR for our [ATAC-seq pipeline](https://github.com/hubmapconsortium/sc-atac-seq-pipeline). I am [currently updating](https://github.com/hubmapco…
-
Hi @kaizhang,
Thank you so much for developing such a great tool! I'm working on a single-cell ATAC dataset that includes both single-end and paired-end samples. Could I do analysis by following [M…
-
Hello, I had issues before and you were very helpful! Now, I have a new problem.
I work with the axolotl genome, it is huge. We have performed ATAC seq, in order to do this we needed to cut the …
-
Hi!
First, I would like to express my appreciation for the Issaac-seq method and the way the GitHub repository is organized. It's incredibly clear and well organized, making it a great resource for…
-
Hi! When trying to integrate 6 datasets following the steps in this vignette https://satijalab.org/signac/articles/integrate_atac.html, we ran into an error saying
`Error: The cell names in the redu…
l-cli updated
6 months ago
-
Hi,
I noticed that according to https://github.com/aertslab/create_cisTarget_databases/issues/4, you mentioned
> the easiest approach, especially for species with few genomic resources, is to ta…
-
https://mp.weixin.qq.com/s/Rt6QiG-IuqAMSb3SloQRBg
ixxmu updated
5 months ago
-
Hello!
I am merging 2 scATACsec data using the vignette "Merging objects"
(https://stuartlab.org/signac/articles/merging.html)
the error is reported as below:
`library(pheatmap)
library(Singl…
-
Hello,
I am trying to apply CHOIR on my precomputed clusters from a method I developed. I am working with the PBMC3k dataset in fact.
Preprocessing is exactly followed step by step from here:
h…