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The MaveDB API uses the now-outdated term `wt_sequence` instead of `target_sequence` inside the models.
This should be updated to use the more generic `target_sequence` throughout the codebase, sin…
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Hi, I'm runing the eNet for my own data, but the GPTab is NULL and without any error message:
Bellow is my code:
```
cre.mat
jphe updated
7 months ago
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Hi, I am running the Scenic+plus pipeline with Zebra fish and I am getting `Unable to load annotation for custom` warnings when I run `run_pycistarget`
All databases created specifically for Zebra …
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https://doi.org/10.1109/BIBM.2016.7822593
> Enhancers are crucial to the understanding of mechanisms underlying gene transcriptional regulation. Although having been successfully applied in such pr…
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| Name | Department/Program | Experties/Interests |GitHub ID |
| ------------- | ------------- | ------------- | ------------- |
| Annie Cavalla | Bioinformatics | Cancer genomics, single cell tra…
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Seems that there have been discussions/ideas happening about genotype/variant representation - with use cases/requirements coming from Monarch and other efforts (e.g. JAX, MGI, MPD, AGR, etc).
I'd …
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Could it be possible to support more genomic regions by plotPeakProf2?
Now the **by** parameter of **plotPeakProf2** is only support **one** of 'gene', 'transcript', 'exon', 'intron' , '3UTR' , '5U…
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Hi Dr. Shao,
I'm generating the TT-seq analysis to see the influence of acute degradation of a TF on the transcription of mRNAs and eRNAs. I find your transcription unit annotation script - TU_filt…
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Hi,
I find ANANSE rather useful in inferring regulatory interactions. I would like to use it to connect the peaks to the target genes directly. Is there a way to do that? Can I somehow extract the p…
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Integration of lists with information about chromosomal segments (including several genes e.g., ”chr22: 19,037,148 - 21,228,744”) for use in Scout in the same manner as we use gene lists. This is esse…