mcatlas_annotate_mc_by_mc2mc_projection: Annotate query metacell with atlas by comparing query...

In tanaylab/metacell: Meta cell analysis for single cell RNA-seq data

Annotate query metacell with atlas by comparing query metacell gene profiles to the atlas MCs gene profiles This will take each MC in the query MC and find its to correlated metacell in the reference, gemeratomg some figures along the way/

Description

Annotate query metacell with atlas by comparing query metacell gene profiles to the atlas MCs gene profiles This will take each MC in the query MC and find its to correlated metacell in the reference, gemeratomg some figures along the way/

Usage

mcatlas_annotate_mc_by_mc2mc_projection(
  atlas_id,
  qmc_id,
  qmat_naming_type,
  new_qmc_id,
  q_gset_id = NULL,
  T_cor_gap = 1,
  nd_color = "lightgray",
  fig_cmp_dir = NULL
)

Arguments

atlas_id	id of atlas object in scdb
qmc_id	id of metacell object ina scdb
qmat_naming_type	naming scheme of query matrix/mc
new_qmc_id	id of recolored metacell object to save in DB (NULL will supress updating db)
q_gset_id	query gene set id object (optional) - to restrict features used in comaprison to the intersection of atlas and query gsets
T_cor_gap	how much gap between internal atlas mc-mc correlation and query-atlas correlation one is allowing to keep the annotation.
nd_color	- color for metacell without an annotation
fig_cmp_dir	name of directory to put figures per MC

tanaylab/metacell documentation built on Jan. 29, 2025, 1:34 a.m.