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Hi,
First, thank you for this wonderful package and documentation.
I am working on finding a differential loop calling for my 4 samples (8 reps) data using diffloop and below is my loopobject
`…
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## **Problem**
We have defined [Taquito Success Metrics](https://www.notion.so/Taquito-Success-metrics-e3b7a8b7a3a34274b275eb9ee0d366ce). But we are missing a bit piece of feedback based on documen…
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In the sample input data, the first line is : Sobic.001G106200 Chr01 + 8181013 8181152 8181296 8186236
I just couldn't understand the meaning of the last four coordinates.
Could you please explain t…
hw449 updated
6 years ago
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https://doi.org/10.1109/BIBM.2016.7822515 (https://arxiv.org/abs/1611.05777)
> Transcription factors (TFs) are macromolecules that bind to \textit{cis}-regulatory specific sub-regions of DNA promot…
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My goal of this exercise is to be more familiar with Differential gene expression with RNA-seq.
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- EXP annotations to this term are here:
https://docs.google.com/spreadsheets/d/17UgKKsxtQveZW9o5cvqlaNpGS5Zx2ymZVkdW9vZjzxc/edit#gid=0
(Edited to make clearer):
GO:0006351 transcription, DNA-…
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> **Background.** Gene expression is mediated by specialized cis-regulatory modules (CRMs), the most prominent of which are called enhancers. Early experiments indicated that enhancers located far fro…
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Hi,
met a problem with ChIPseeker recently.
The first one is the region priority problem with "genomicAnnotationPriority"
My question is:
when I use genomicAnnotationPriority = c("3UTR", "…
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# Data overlap
## Generate a `data overlap matrix`. Overlapping to the `ATAC-Seq differential accessible regions`
- [x] **ChIP-Seq:** `TRUE` or `FALSE` of there is an overlap between ATAC-Seq an…
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Hi, Illumina discontinued the earlier version of the EPIC array. Can you suggest a way to use RnBeads with EPIC v2.0 data?