Swarbricklab-code/BrCa_cell_atlas

Issues

• Reproducing SC subtype calls

  #27 opened a year ago by miguecass
  3

• missing h5 files from Zenodo

  #3 opened 3 years ago by Dantferno
  9

• BAM files

  #30 opened 9 months ago by elliewith
  0

• Gene Positions data for running inferCNV.

  #29 opened a year ago by purvapruthi
  1

• Garnett subtypes

  #28 opened a year ago by miguecass
  0

• Request for providing RData files for major,minor,subset celltypes

  #26 opened a year ago by tahseen-igib
  0

• Request for providing script for running stereoscope for spatial data

  #25 opened a year ago by tahseen-igib
  0

• Question about difference between AUcell & other geneset enrichment tools

  #24 opened a year ago by tahseen-igib
  1

• Request for gene_clusters.txt file for AUCell analysis for spatial data

  #23 opened a year ago by tahseen-igib
  1

• Potentially application of ecotyper?

  #22 opened a year ago by WangKang-Leo
  1

• Request for Original H&E Images for Spatial Transcriptomics Slides

  #21 opened 2 years ago by YuxuanXie1214
  3

• Deconvolution file corresponding to 1160920F Patient counts from the zenodo repository.

  #20 opened 2 years ago by ZheFrench
  2

• Request to Meta data csv file

  #18 opened 3 years ago by pratapstat
  2

• scSubtype related code，Is it possible to call directly？

  #16 opened 3 years ago by zhangjl-work
  7

• CITE-seq data filtering

  #17 opened 3 years ago by BMBlobner
  1

• Batch Corrected Count Matrix

  #15 opened 3 years ago by Ethan-Earlie
  3

• Single Cell Count

  #14 opened 2 years ago by Ethan-Earlie
  3

• About the "filtered_count_matrices.tar.gz" download on zenodo

  #19 opened 2 years ago by lhyNB
  2

• Identifying thresholds for cancer cell detection with medoids clustering

  #13 opened 3 years ago by RegnerM2015
  2

• sd_amplifier set to 1.3 for de-noising?

  #11 opened 3 years ago by RegnerM2015
  2

• How was GSE176078_Wu_etal_2021_BRCA_scRNASeq.tar.gz created?

  #8 opened 3 years ago by RegnerM2015
  2

• Question about Pseudobulk

  #7 opened 3 years ago by ZeroLi-Bio
  1

• Code about the gene module

  #12 opened 3 years ago by JulieBaker1
  0

• The result files of Stereoscope are missing

  #9 opened 3 years ago by yewero
  1

• tif or jpg format of the HE image data

  #10 opened 3 years ago by JunMa11
  1

• Generating pseudobulk

  #5 opened 3 years ago by inofechm
  2

• How did you combine the pseudobulk and TCGA before hierarcheal clustering?

  #6 opened 3 years ago by ZeroLi-Bio
  1

• Can't find codes for subclustering of epithelial cells

  #4 opened 3 years ago by FlyPythons
  0

• Looking for input file

  #2 opened 3 years ago by inofechm
  1

• Can't find codes

  #1 opened 3 years ago by HBioquant
  1