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plantformatics / maize_single_cell_cis_regulatory_atlas

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Example of bed file of genes for calculating per-cluster gene activity scores #3

Closed IsaacDiaz026 closed 1 year ago

IsaacDiaz026 commented 1 year ago

Hi Alex,

I just ran the coAccess function in Socrates to determine per-cluster co-accessible ACRs. I now am working on calculating per cluster gene-accessibillity scores using your call_coaccessible script.

Could you share a few lines of this bed file, "/scratch/apm25309/single_cell/ATACseq/v3/bedfiles/resources/Zm.geneAnnotation.bed". I just want to make sure I format my bed file correctly when working through this.

Thanks!