-
Nice work, I want to know what does the motif files under motif_lists directory represent?
cisbp_motifs_wmax.txt
compendium_motifs_wmax.txt
homer_motifs_wmax.txt
jaspar_motifs_wmax.txt
prte_motif…
-
Hi, I am trying to use TOBIAS in my ATAC-seq data, and I can't move forward with the create a TF network. I got the error below.
Besides the bed files (*_bound.bed), I created a list using all the ge…
-
https://mp.weixin.qq.com/s/GwpjUZ6yTJkG6wIzW6w6fg
-
**Edited to add proposed annotations for each lncRNA**
In progress - Hi
Figure 2 of PMID:31048766 describes 13 functions of lncRNAs. If the MFs for these RNAs are not available then other terms…
-
![image](https://user-images.githubusercontent.com/59464105/141708104-1931a19b-ca51-40f6-8a07-8e071104d8e2.png)
I used "ananse binding" as the following command:`ananse binding -A 1.rep1.bam 1.rep2.b…
-
Hi,
Thank you for the useful package.
In [Step 2](https://htmlpreview.github.io/?https://github.com/aertslab/SCENIC/blob/master/inst/doc/Step2_Regulons.html):
> ### 1.3 Keep only the motifs an…
-
Some users find that orphan genes simply obfuscate the micr-synteny visualization. For this reason we want users to be able to hide orphan genes at their whim. This functionality should be implemented…
-
Bayne et al 2020 currently cites the bioRxiv, but it shoudl really cite the updated and published paper.
We should also check any other cited preprints to see if they have been published.
https://…
-
* **InterPro ID / label**
IPR011060 | Ribulose-phosphate binding barrel
IPR013785 | Aldolase-type TIM barrel
* **Description of issue**
Similar to #4063, both these superfamilies are associated …
sjm41 updated
2 years ago
-
@scoetzee,
Now that the parallel execution of ```MotifbreakR``` works so well, I wonder if this could be made available for ```calcaultePvalues``` also?
Any suggestions?
- Pali