Discussions

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  pp.import_data()

  pass-c started Aug 21, 2024 in General

  

  

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  Is there any code to handle hic data please? I didn't find it in tutorial. Thank you very much for your help!

  leowxvandy asked Aug 14, 2024 in Q&A · Unanswered

  

  

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  What counting method was using in v2.2.0?

  newtonharry started Aug 23, 2024 in General

  

  

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  Integration with SCENICplus

  TingTingShao announced Mar 16, 2024 in Announcements · Closed

  

  

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  Multi-Sample Pipeline and Cell Type Annotation

  flcello asked Aug 2, 2024 in Q&A · Unanswered

  

  

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  Differential motif enrichment

  CarstenKnutsen asked Oct 18, 2023 in Q&A · Answered

  

  

  

  

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  Why doesn't the KNN produce a connectivities in obsp?

  newtonharry started Jul 2, 2024 in General

  

  

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  Potential addition of Shared k-NN Graph function

  newtonharry started Jun 12, 2024 in Ideas

  

  

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  Usage principles on AnnDataSet

  dbrg77 started May 7, 2024 in General

  

  

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  Spectral embedding with mixed high/low depth nuclei samples

  wangmeijiao asked Apr 14, 2024 in Q&A · Unanswered

  

  

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  What is the input format to peak calling?

  adamklie started Apr 12, 2024 in General

  

  

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  snap.pp.mnc_correct groupby

  TingTingShao announced Apr 10, 2024 in Announcements

  

  

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  marker genes

  TingTingShao started Apr 2, 2024 in Ideas

  

  

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  Providing pre-defined clusters to feature selection from annotated cluster cell types via paired scRNA-seq data

  newtonharry started Mar 30, 2024 in Ideas

  

  

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  Notes on feature selection

  research 🔬 more research needed

  kaizhang started Mar 14, 2023 in Ideas

  

  

  

  

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  Where does the iterative feature selection approach originate from?

  newtonharry started Mar 30, 2024 in General · Closed

  

  

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  What is the SnapATAC2 definition of a "reproducible" peak?

  adamklie asked Mar 22, 2024 in Q&A · Answered

  

  

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  snap.pp.select_features

  wangjiawen2013 announced Sep 12, 2023 in Announcements

  

  

  

  

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  How to interpret the eigenvalues of spectral embedding plot

  newtonharry started Mar 22, 2024 in General

  

  

  

  

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  How does SnapAtac2 snap.tl.merge_peaks work?

  1010shane asked Jan 3, 2024 in Q&A · Answered

  

  

  

  

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  Failed installation

  wenhaochen3 asked Mar 22, 2024 in Q&A · Unanswered

  

  

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  try different knn methods

  TingTingShao announced Mar 16, 2024 in Announcements

  

  

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  [Question from Beginner] How can I use SnapATAC2 if I don't have BAM file or fragment files?

  JiehoonKwak announced Mar 18, 2024 in Announcements

  

  

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  Question: what are the setting optimised for speed rather than memory use?

  vitkl announced Jul 14, 2023 in Announcements

  

  

  

  

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  Analysis of single-cell dataset that includes both single- and paired-end samples?

  zhang-jiankun announced Mar 11, 2024 in Announcements

  

  

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