Comments (1)
Actually use code from https://github.com/LieberInstitute/spatialLIBD/blob/002838163e6373f4d3899f74fd867c6c6fe91eab/inst/scripts/make-data_spatialLIBD.R#L72-L90
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Related Issues (20)
- Region differential expression without white matter
- Region white-matter enrichment trends HOT 7
- Density and/or proportion changes for each cell type across region HOT 2
- Explore deconvolution marker genes (mean ratio)
- Deconvolution: Visium IF data HOT 1
- Deconvolution: Visium data HOT 1
- Cell-cell communication of Visium data HOT 3
- Test cell type composition acrosss anterior, mid, posterior HOT 4
- snRNA Cell-cell Communication Results HOT 3
- Inconsistent naming convention for Brain positions in the raw cluster results HOT 4
- Fix Spatial Plot Dimensions HOT 1
- Make SPOTlight results reproducible + use all input snRNA-seq data HOT 1
- Add tissue imperfections to R object + spatialLIBD app HOT 9
- Supp fig: spatial location of manually annotated tissue imperfections HOT 2
- Add Melissa' & Prashanthi's code to this repo HOT 8
- Explore _position_ enrichment results HOT 6
- Supplementary Table Export HOT 10
- Provide anndata files out of the box HOT 1
- manual annotation HOT 2
- Update Samui Browser & VistoSeg citations
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