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I'm sorry for submitting an issue here.
I tried to download these databases using zsync.
https://resources.aertslab.org/cistarget/databases/homo_sapiens/hg38/screen/mc_v10_clust/region_based/hg38_…
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Hi all,
Thanks for this wonderful tool!
We're trying hard to install pycistopic using pip in our cluster (NYGC), but we keep hitting all sorts of errors. We managed to run pySCENIC with singular…
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Greetings,
I am not sure if this is currently possible, but it would be great to allow MSFragger-Glyco (N-linked workflows) to assign glycans to peptides with a motif that is not N-X-S/T. It would…
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Hi,
I find that your json file is preprocessed where pre-generated motifs are inside. Could you please share the code about how you generate them? Or maybe I have missed some files achieving this t…
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Thanks for providing the SCENIC+ public motif collection PWMs , it is very helpful !
I noticed that the version of the motif collection is "V10: 2022 SCENIC+ clustered motif collection (v10nr_clust…
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Hello,
I was playing around with `train_BA-2motif.ipynb` when I realized that some input graphs are not as expected. Specifically, by running this code after the cell where you read the dataset:
…
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I have called a bunch of samples with straglr and merged the (chrom, start, end, motif) beds into one unified bed. I would like to use this merged bed to genotype each sample again. Sometimes differen…
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Thank you for the wonderful tool! When I want to make my own GRN, get error. My network can't download ref_genome so
I manual download https://hgdownload.soe.ucsc.edu/goldenPath/mm39/bigZips/mm39.fa…
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I am trying to compare JASPER motifs to motifs found by TF-modisco-lite using the following command:
```
modisco report -i heart_left_ventricle_random_2000_all_modisco_results.h5 -o report_all_m…