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In working through the 'Analyzing PBMC scATAC-seq' vignette with my own data generated using cellranger-atac count, I run into the following error when calling the CreateChromatinAssay() function:
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I am integrating 5 objects. I added fragment assays to all objects. The features of each fragment assay are the common peaks among all objects. I made sure each fragment assay had the same number of…
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Hi @All,
The error occurred when runing below code,
library(SCENIC)
library(SCopeLoomR)
loom
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Hi,
First of all, thank you for developing the signac program.
when I was doing motif analysis using scATAC sequencing data in Signac program
I could get different accessibility peaks in each clus…
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Hi Tim,
When I was running the GeneActivity function under the version 1.0.0, it seems that it got stuck somewhere. The processing bar stopped at 3% and did not move forward even after an overnight r…
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I'm trying to integrate two data sets according to the integration vignette. They are both generated from 10X cell ranger. I get an error when I try to run FindIntegrationAnchors as follows:
```
C…
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Context: #689 - which is adding a script to specifically install Bioconductor packages on the project Docker container.
Having logic that checks whether or not a package is installed and if not ins…
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Hi Yifan,
I started exploring some of your recent changes. They are really great, thanks for doing this.
The UI organization could be a bit better. Some aspects are a bit confusing.
I sugges…
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@timoast @caleblareau Congratulations for the release of Signac 1.0.0!
I have run the vignette of the Colorectal cancer dataset using my own mtscATAC-seq dataset
(same code, just different input).…
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Hi there,
I was attempting to use a combination of merging and integration in a workflow with Signac. I have two datasets D1 (samples 1 to 4) and D2 (samples 5 to 6). There multiple different u…