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## Preferred term label
ATAC-seq
## Synonyms
## Textual definition
ATAC-seq (Assay for Transposase-Accessible Chromatin using sequencing) is a technique used in molecular biology to assess…
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Hi!
I'm using the pySCENIC pipeline with a single cell dataset from a paper. I created the cistarget database and everything seems ok.
There is only one problem. When I run `pyscenic ctx`, with …
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* **PTHR ID & PTN node:**
GO:0043985 | histone H4-R3 methylation | IBA with locus:2161967 , PTN000280591
* **Sequences with problematic annotation (ID + gene/protein name):**
https://www.pombas…
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- [ ] Discuss table design with @andrewhercules @edm1
- [ ] Put L2G Table at the top. All genes at locus with their associated scores (no threshold). Hover over to get raw logi and logo scores (5 in…
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Hey,
attempting to follow the https://muon-tutorials.readthedocs.io/en/latest/single-cell-rna-atac/pbmc10k/2-Chromatin-Accessibility-Processing.html tutorial. Instead of downloading the data manual…
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Hi Colin
I have reviewed some of the data and I stick with the statement that SMAD6 and SMAD7 are not dbTFs. A summary of why I have made this decision is below. There is just one paper to support …
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Hi, I am trying to combine multiple fragment files (from different conditions that have the same cell types) into a single object (multiome RNA + ATAC) before peak calling (since I would like to do pe…
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Action item from GOC meeting Oct 2017 + May 2018 meeting
Aim to have a proposal for the April 2018 meeting.
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Hi Mette,
Thanks for developing this tool, we are very interested in bringing this analysis into more of our scATAC workflows! While hoping to optimize for running time, I found the --track-off opt…
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Hello! I am trying to integrate two sc datasets and am having issues with the integration. The datasets obtained are both pre-processed. Here is my code:
```
# making chromatin assay to ATAC seu…