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Hello,
I want to call allele chromatin loops. Does FAN-C call allele chromatin loops?
Best,
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Hello,
Thanks for developing this good tool to call chromatin loops. Our HiC sample just has ~150million valid pairs, do you think mustache can be used to call loops? and what resolution should …
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![1](https://user-images.githubusercontent.com/10727217/184626040-5605dfa3-6ed0-4310-bf45-ad148df8417a.png)
![2](https://user-images.githubusercontent.com/10727217/184626048-1bb9fb09-059f-467d-a4cd…
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Xiaotao,
1.) In your NC peakachu paper, Fig.1 mentioned GM12878 is used for the training dataset. But in the Supplementary Data 1, GM12878, K562, H1ESC, and mESC are used for positive training se…
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* **ARBA rule (ID and label):**
GO:0140097 | catalytic activity, acting on DNA | IEA with ARBA00027986 | GO_REF:0000117
* **Sequences with problematic annotation (ID + gene/protein name):**
p…
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Please provide as much information as you can:
GO:1990343 heterochromatin domain
* **GO term ID and Label**
* **Reason for deprecation** Put an x in the appropriate box:
- [ ] The reaso…
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Hi Tan,
Happy Monday!
I remember reading in the readme of this repo that hickit is much faster than dip-c. I know that hickit does not implement the 3D imputation step like Dip-c does. But during…
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Hi, Xiaotao.
I am now using NeoloopFinder to detect Neoloops/Neotads. But I found one Neoloop was not reported (even the last column tag as 0) from NeoloopFinder. I traced back and found that t…
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Dear all,
After finishing `chess sim`, i extracted the highly dissimilar regions defined by low z-ssim and high SN values. After visualization, i found that it is difficult for me to catch any sign…
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Hello! When running the MultiVI_tutorial.ipynb, I encountered a strange bug.
```python
# We can now use the organizing method from scvi to concatenate these anndata
# adata_mvi = scvi.data.orga…