Ultimately I think we want to have a TSV file with the project ID and then a column for the groups to create and the cell types that should be included in the normal group. That will make it easier to process across all projects and track down which groups are used where. I don't think we need that in this PR but we might file an issue to do that later?
Originally posted by @allyhawkins in #1169 (comment)
Edit: Noting this parallel comment, #1169 (comment)
The goal of this issue is to add TSVs into the infercnv-consensus-cell-type module that provide the normal reference groups for each project. We'll also need to update scripts/build-normal-references.R parse a TSV input with that information instead of direct taking arguments for reference cell groupings.
Originally posted by @allyhawkins in #1169 (comment)
Edit: Noting this parallel comment, #1169 (comment)
The goal of this issue is to add TSVs into the
infercnv-consensus-cell-typemodule that provide the normal reference groups for each project. We'll also need to updatescripts/build-normal-references.Rparse a TSV input with that information instead of direct taking arguments for reference cell groupings.