diff --git a/docs/upload.md b/docs/upload.md index 554a30c..5b886e3 100644 --- a/docs/upload.md +++ b/docs/upload.md @@ -143,11 +143,11 @@ In this example the data include images (`.tif`) and metadata (`.json`) from mul #### high-res histology annotation All annotation files use the following naming scheme: ` + _desc-[label] + _suffix.ome.zarr` -where `[label]` is replaced by the annotator's initials and `_suffix` indicates the type of segementations being annoated. Specifically, when annotating discrete segmentations, use `_dseg` as the suffix (see the [BIDS spec on discrete segementations](https://bids-specification.readthedocs.io/en/stable/derivatives/imaging.html#discrete-segmentations)). +where `[label]` is replaced by the annotator's initials and `_suffix` indicates the type of segmentations being annotated. Specifically, when annotating discrete segmentations, use `_dseg` as the suffix (see the [BIDS spec on discrete segmentations](https://bids-specification.readthedocs.io/en/stable/derivatives/imaging.html#discrete-segmentations)). For example, an annotator with an initial JS annotating discrete segments would name the annotation file as `sub-MR243_sample-slice0000slice0004_stain-LY_DF_desc-JS_dseg.ome.zarr` -A `.tsv` file could be included to map the IDs (integer values) of the discrete segmentations to the custome labels, where `` is replaced by the name of the annotation file. It contains a lookup table with the following columns (see the [BIDS spec on custome TSV](https://bids-specification.readthedocs.io/en/stable/derivatives/imaging.html#common-image-derived-labels)): +A `.tsv` file could be included to map the IDs (integer values) of the discrete segmentations to the custom labels, where `` is replaced by the name of the annotation file. It contains a lookup table with the following columns (see the [BIDS spec on custom TSV](https://bids-specification.readthedocs.io/en/stable/derivatives/imaging.html#common-image-derived-labels)): ``` index name 1 Single Fiber