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**Describe the bug**
In order to perform differential enrichment, I wanted to try on a single gene, but gimme crashes.
**To Reproduce**
Steps to reproduce the behavior:
```
gimme maelstrom -N12…
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## methylation distribution on read
I want to analyze the RNA m6A modification. I selected m6A_DRACH model when dorado basecaller.
Then I use modkit for downstream analysis.
`modkit pileup $bam \
…
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The paper mentions the theoretical ability to filter out restriction enzyme sites; is there a way to specify motifs to not output in the codon optimized sequence to avoid restriction enzyme sites?
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I've been running into trouble with GraphAligner recently on graphs that contain "universal" motifs. These are small graph components that have the right combination of edges and node sequences which …
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Hi @tropfenameimer,
I need to create the mouse database with an additional motif.
In order to run create_cisTarget_databases the procedure say that you need the motif collection and the FASTA file.
…
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Running TRGT v0.8 on a custom catalog that includes loci with several adjacent motifs, I found this row in the output vcf throws off my parsing script:
```
chr1 119049087 . AAAAAATAAAATAAAATAAAAT…
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https://doi.org/10.1101/172767 (http://www.biorxiv.org/content/early/2017/08/06/172767)
> Determining the binding locations of regulatory factors, such as transcription factors and histone modifica…
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**SO term name and accession**
Please give the term name and accession. Example: rRNA_gene (SO:0001637)
SO:0001659 promoter_element : An element that can exist within the promoter region of a gen…
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collecting references and annotations --
1. [VarCover: Allele Min-Set Cover Software](https://www.sciencedirect.com/science/article/abs/pii/S1525157819304143)
>To facilitate reference-material s…
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First, thank you very much for this most helpful tool.
I encountered a problem where the occurrence of a PFM did not matched the sequence and is listed with distances of 250 nt.
This issue happened…