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Hello everyone, great fan of this work! I have a question:
Is there any chance to get access to (already computed) a genome-wide scent peaks database? Does this dataset exist?
Bests,
Gabriel…
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**Describe the bug**
Hello, I am trying to perform run_scenicplus. It gets through part of the way, but then will just stop running and I don't know why. I'm fairly new to using Python so I'm not sur…
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Hello! Your software is really great, but I only have ATAC-Seq, Hi-C data, but no H3K27ac ChIP-Seq data. Can I use this ABC model for enhancer-gene prediction.
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Hello,
I wanted to know the recommendation on users providing their own list of promoters for analysis. We noticed that bidirectional promoters are filtered out and we would like to include a file …
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Hi,
I'm trying to used PEAS on my own ATACseq data. I have already extract all the feature and performed a model using chromHMM.
My issue is that, the chromHMM output is a .txt file and it's s…
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Hi,
I am currently working on SE analysis for a set of samples. For all samples, the analysis went well in the ROSE_callSuper step. However, in the ROSE_geneMapper step, I got *_SuperStitched_GENE_…
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PathGO has terms that describe proinflammatory processes at the cellular level:
1. PATHGO_0000005 (non-specific T cell activation factor)
2. PATHGO_0000010 (mediates non-specific T-cell activation…
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Jie Liu (Cincinnati Children's) wrote on 9/23:
> I have been struggling for a while about gene fusion scope/definition/nomenclature issues.
>
> To have a standardized nomenclature for the fu…
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Hi, I'm trying to use the public data as mentioned in the supplementary file: H3K27ac-ChIP: ENCFF384ZZM and DHS: wgEncodeUwDnaseK562AlnRep1.bam, wgEncodeUwDnaseK562AlnRep2.bam. And I also change the r…
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I have curated multi-gene displays for all datasets in the following profiles (very few have issues and I am keeping track of them and will create tickets later):
- Adult
- Aging
- Central auditory…