Difference between revisions of "WBConfCall 2020.12.17-Agenda and Minutes"

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*** COVID19 cell atlas (covid19cellatlas.org)
 
*** COVID19 cell atlas (covid19cellatlas.org)
 
*** CellXGene (https://cellxgene.cziscience.com/)
 
*** CellXGene (https://cellxgene.cziscience.com/)
 +
*** Should be analyzing differential gene expression (but not using a t-test)

Revision as of 17:01, 17 December 2020

Help Desk

Agenda

Minutes

  • CeNGEN
    • Will talk in January for integration into WormBase: who should be on that call?
      • Eduardo et al.
    • Eduardo has several ideas about how to integrate and display
      • Has slides (for Alliance) with a breakdown of technology over time, species represented (mostly human and mouse)
      • First C. elegans dataset in 2017; another in 2019 with re-annotation of 2017 dataset
      • scRNA-seq data sets are in a big sparse matrix
      • Data in raw FASTQ file --> read alignments --> unfiltered matrix --> barcode filtering --> filtered matrix
      • Data deposited usually at SRA and ENA, but often not raw data, usually the already filtered matrix (sometimes even more processed than that)
      • Human Cell Atlas Data Portal (data.humacellatlas.org) (only human and mouse; not interested in other species)
      • COVID19 cell atlas (covid19cellatlas.org)
      • CellXGene (https://cellxgene.cziscience.com/)
      • Should be analyzing differential gene expression (but not using a t-test)