Discussions

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  Error when running Signac's vignette Analyzing PBMC scATAC-seq

  realmungmung asked Jan 18, 2024 in Q&A · Closed · Answered

  

  

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  How to interpret the results from LinkPeaks() analysis?

  AndiL04 asked Jan 16, 2024 in Q&A · Answered

  

  

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  JASPAR2022 getMatrixSet difference

  Jimmyyun asked Jan 17, 2024 in Q&A · Answered

  

  

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  Integrating joint snATAC/RNA-seq experiments

  cristanchoa asked Feb 10, 2021 in Q&A · Answered

  

  

  

  

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  installation r-signac with conda

  Carabou started Jan 16, 2024 in General · Closed

  

  

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  Integrating multiple samples from 10X multiome data? Is there a tutorial for that?

  micosacak asked Jan 15, 2024 in Q&A · Unanswered

  

  

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  Should I integrate or merge my scATAC datasets?

  Sun-storm asked Jan 12, 2024 in Q&A · Answered

  

  

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  Integrating multiple 10x Multiome (scRNA+ATAC) data-Harmony vs CCA

  bhekmat asked Dec 19, 2023 in Q&A · Answered

  

  

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  Signac- Stuart lab-Closestfeature-scATAC

  lprakas1 asked Jan 9, 2024 in Q&A · Answered

  

  

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  Problems in RNA and ATAC combination after SCT transformation on RNA data

  francescasci91 asked Jun 13, 2022 in Q&A · Answered

  

  

  

  

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  Variable features after adding gene activity to Seurat object

  czfoo asked Dec 20, 2023 in Q&A · Answered

  

  

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  CallPeaks() function on multiple fragments.tsv.gz files

  hongruhu asked May 26, 2023 in Q&A · Answered

  

  

  

  

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  Error in slot(object = object, name = layer) : argument "slot" is missing, with no default

  echo1899 asked Dec 15, 2023 in Q&A · Closed · Answered

  

  

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  Low amount DARs, wrong latent.vars

  JoreVW asked Dec 14, 2023 in Q&A · Answered

  

  

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  invalid class "CellDataSet" object: sampleNames differ between assayData and phenoData

  sylestiel started Nov 27, 2023 in General

  

  

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  error in CoveragePlot: Error in .Call("CRsparse_colSums", x, na.rm, FALSE, sparseResult) : "CRsparse_colSums" not resolved from current namespace (Matrix)

  onetaoneryan asked Dec 5, 2023 in Q&A · Answered

  

  

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  Question pertaining to Normalization for Multiome Integration

  sylestiel asked Nov 6, 2023 in Q&A · Answered

  

  

  

  

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  How to know which cells are used in TilePlot?

  YichaoOU asked Nov 22, 2023 in Q&A · Unanswered

  

  

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  Question about identifying differentially accessible peaks and overrepresented motifs

  chunhuicai asked Nov 16, 2023 in Q&A · Answered

  

  

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  Annotation of Macaca mulatta for multiome analysis

  sylestiel started Nov 17, 2023 in General

  

  

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  Annotating miRNAs in sc-ATAC dataset

  Eunice0519 asked Nov 21, 2023 in Q&A · Unanswered

  

  

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  Peak Annotation on Integrated Dataset

  bhekmat asked Nov 14, 2023 in Q&A · Answered

  

  

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  How to integrate more than 1 10X multiome data for comparative analysis

  inayat45shaikh asked Oct 29, 2023 in Q&A · Answered

  

  

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  sc ATAC seq normalization

  mliu86 asked Oct 30, 2023 in Q&A · Unanswered

  

  

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  Question about motif analysis vignette

  ahmedabbas811 asked Nov 7, 2023 in Q&A · Answered

  

  

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