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Hi,
Great job! I am very interested in the multi-omics data presented in your published paper. However, unfortunately, accessing the data was not convenient. Following the instructions in your pape…
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I try different way to merge or integrate the multiple multiome (snRNA and snATAC) datasets. But always shows that invalid class "Seurat" object: all assays must have a key. I followed the sugg…
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Hello! Where is the example of spatial transcriptome and ATAC integration? I didn't find this part in your tutorial. Thank you for your help.
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I started using Genrich the past couple months, and wow I'm already loving it! The peak calls are quite good, and the ability to exclude regions, chromosomes upfront turns out to be super convenient. …
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Hi,
I am trying to analyse 2 ATAC seq samples that have been mapped to a GRCh38 + mm10 genome. When building the objects seurat bounces the _ separators between the genome and the fragment to -
Th…
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Hello everyone,
I'm facing some challenges with the integration analysis of scRNA-seq and scATAC-seq. I obtained a good clustering result during my first transfer, but the second transfer resulte…
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Hi,
I successfully installed version 2.2.2 of the ATAC-Seq pipeline and I'm trying to validate the installation by running test examples given in dev/test/test_workflow.
It finishes well, but the …
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### Description of bug
```console
[tp59565@genossh:MultiQc] $ more MultiQcFastQc.out
Tue Dec 12 01:13:07 CET 2023
[WARNING] multiqc : MultiQC Version v1.17 now available!
[INFO ] …
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Hi,
Firstly, thanks for creating this incredibly useful tool. I've been having some issues while trying to run CallPeaks on my object. I followed some of the suggestions in other issues (#473, #56…
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Hi there,
Many thanks for creating the tool - excellent work! I have a few questions about using it with my data.
I have ATAC-seq and H3K27ac ChIP-seq from three individuals (biological replicat…