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Hello, dear Kai Zhang!
i have some troubles when running "Taiji" on some human ATAC-seq data.
> **[ERROR][11-16 03:32] ATAC_Filter_Bam(2fde..) Failed:**
Ran commands:
bash -c 'set -o pipef…
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Hi,
I am trying to validate whether I have TOBIAS working. Are there test output files / figures for the test data that can be used to validate whether my code is working?
Niko
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Hello!
Thank you for the software, it is very useful.
I'm working with ATAC-seq data of a cell line with overexpression of a transcription factor. When doing the differential motif analysis with `…
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From Nils:
> Cells API next steps:
> - PIs agreed that a beta release to a targeted audience would be the most reasonable next step
> - **On our end, we need to update the UI with “disclaimers” a…
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HMMRATAC (https://github.com/LiuLabUB/HMMRATAC) is a dedicated peak caller for ATAC-seq data. It is written in JAVA, and it has some shared ideas with MACS2. It can be rewritten in Python3 and be inte…
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Hi,
I have noticed during quality control of my atac-seq data that one of my samples, sample #4, has an abnormally low number of fragments in ArchR but not in Signac. Is there a difference between…
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Many months ago I completed a Seurat analysis for scRNA-seq, and recently I just completed Signac analysis for ATAC-seq on the same tissue, and now I would like to integrate the two datasets.
…
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I'm trying to analyze my own scMultiome data using NCBI annotation based on the pbmc tutorial, but I'm having trouble getting the link to appear at the CoveragePlot section.
I found "The 2 combin…
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https://mp.weixin.qq.com/s/uzHm9Srqw2CM04mQQQEzxQ
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https://mp.weixin.qq.com/s/pkImvh7V32GgmQDUew9xNg