RNAScope_prop: Cell Type Proportions estimated from RNAScope

In lahuuki/DeconvoBuddies: Helper Functions for LIBD Deconvolution

Cell Type Proportions estimated from RNAScope

Description

Cell type proportion estimates from high quality images from Huuki-Myers et al., bioRxiv, 2024, doi: https://doi.org/10.1101/2024.02.09.579665.

11.49 kB

Usage

RNAScope_prop

Format

A data.frame object.

Details

SAMPLE_ID : DLPFC Tissue block + RNAScope combination. Sample : DLFPC Tissue block (Donor BrNum + DLPFC position). Combo : RNAScope probe combination, either "Circle" marking cell types Astro Endo, Inhib, or "Star" marking Excit, Micro, and OligoOPC. cell_type : The cell type measured. Confidence : Image confidence, this dataset has been filtered to the high & Ok confidence images. n_cell : the number of cells counted for the Sample and cell type. prop : the calculated cell type proportion from n_cell. n_cell_sn : number of nuclei in the corresponding snRNA-seq data. prop_sn : cell type proportion from the snRNA-seq data.

Source

https://github.com/LieberInstitute/brainstorm/blob/master/data-raw/RNAScope.R

lahuuki/DeconvoBuddies documentation built on May 5, 2024, 9:35 a.m.