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Brourd mentioned angles on motifs. I would love if we were able to see the following info for a motif. The angle of its rotation. And what side it rotates to. And preferable an ability to sort after b…
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Hello,
Thanks for the great package. The tutorial shows RENIN applied to a single nucleus multiome dataset. Can we also apply the pipeline to separate snRNA-seq and snATAC-seq data (not from the s…
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> Convolutional neural networks (CNNs) have been shown to perform exceptionally well in a variety of tasks, including biological sequence classification. Available implementations, however, are usuall…
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For the chimeric UTR data analysis, all our constructs have the same 3'UTRs, and there are few motifs present, so we should fit a model to only that data.
At the moment the analysis in
`raw_data_a…
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**1. Suppl Figure 1**
- [x] A. FACS plots of PND8 and PND15 spermatogonia isolation (Irina)
- [x] B. Immunocytochemistry (ICC) of sorted vs unsorted spermatogonia population (Irina)
- [x] C. …
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You could click on the motif and it would enlarge so you can get an idea as to whether or not it would fit in the space.
- Jieux
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Hello
I call superstr in the following way
`superstr-outliers.py --pathogenic -i results/superstr/multiparse/fame_rna --bootstrapCI -is -m results/superstr/manifests/fame_rna.tsv --min_len 30 --…
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Hi @joschif !
Thank you for this helpful package :) I have a couple of questions!
To start, I will just say - I have already tested a lot of parameters in my multiome dataset and can use the def…
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### Setup
Biopython 1.7.0, Python 2.7.13, and Mac OSX 10.12.6
I am trying to run the MEME parser on a file with protein motifs, but it returns a KeyError with 'X'.
The protein motifs occasional…
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Hi,
I have binding sites of RNA binding proteins (RBP) analyzed from CLIP-seq data, so I want to do the motif enrichment and RBP-regulon prediction, which's used as input for SCENIC. How can I do t…