diff --git a/CHANGELOG.md b/CHANGELOG.md index 0caf808..2a9b077 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,3 +1,9 @@ +# openpipeline_spatial x.x.x + +## MINOR CHANGES + +* Add `scope` to component and workflow configurations (PR #22). + # openpipeline_spatial 0.1.1 ## MINOR CHANGES diff --git a/src/convert/from_cosmx_to_h5mu/config.vsh.yaml b/src/convert/from_cosmx_to_h5mu/config.vsh.yaml index 6318fc3..125bc59 100644 --- a/src/convert/from_cosmx_to_h5mu/config.vsh.yaml +++ b/src/convert/from_cosmx_to_h5mu/config.vsh.yaml @@ -1,5 +1,6 @@ name: "from_cosmx_to_h5mu" namespace: "convert" +scope: "public" description: | Converts the output from NanoString experiment into a MuData objcet. - `_exprMat_file.csv`: File containing the counts. diff --git a/src/convert/from_spatialdata_to_h5mu/config.vsh.yaml b/src/convert/from_spatialdata_to_h5mu/config.vsh.yaml index b1ee832..fe25300 100644 --- a/src/convert/from_spatialdata_to_h5mu/config.vsh.yaml +++ b/src/convert/from_spatialdata_to_h5mu/config.vsh.yaml @@ -1,5 +1,6 @@ name: "from_spatialdata_to_h5mu" namespace: "convert" +scope: "public" description: | Reads in the Tables field stored in a SpatialData object and converts it to an h5mu file. diff --git a/src/convert/from_xenium_to_spatialdata/config.vsh.yaml b/src/convert/from_xenium_to_spatialdata/config.vsh.yaml index 2c04882..ec4be83 100644 --- a/src/convert/from_xenium_to_spatialdata/config.vsh.yaml +++ b/src/convert/from_xenium_to_spatialdata/config.vsh.yaml @@ -1,5 +1,6 @@ name: "from_xenium_to_spatialdata" namespace: "convert" +scope: "public" description: | Converts the output from 10X Genomics Xenium dataset into a SpatialData objcet. By default, the following files will be converted: diff --git a/src/filter/subset_cosmx/config.vsh.yaml b/src/filter/subset_cosmx/config.vsh.yaml index df9a068..620ba55 100644 --- a/src/filter/subset_cosmx/config.vsh.yaml +++ b/src/filter/subset_cosmx/config.vsh.yaml @@ -1,4 +1,5 @@ name: "subset_cosmx" +scope: "private" namespace: "filter" description: | Filters the output from NanoString experiment to keep only a subset of the fields of view. diff --git a/src/mapping/spaceranger_count/config.vsh.yaml b/src/mapping/spaceranger_count/config.vsh.yaml index b3e9ee4..c33e977 100644 --- a/src/mapping/spaceranger_count/config.vsh.yaml +++ b/src/mapping/spaceranger_count/config.vsh.yaml @@ -1,5 +1,6 @@ name: spaceranger_count namespace: mapping +scope: public description: Count gene expression and protein expression reads from a single capture area. keywords: [spaceranger] links: