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Fixed typo on normalisation field values. Fixes #1410. #1499

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merged 3 commits into from
Oct 31, 2022
Merged

Fixed typo on normalisation field values. Fixes #1410. #1499

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2fc7dca
Fixed typo on normalisation field values. Fixes #1410.
ESapenaVentura Oct 18, 2022
734715e
Merge branch 'staging' of https://github.com/HumanCellAtlas/metadata-…
ESapenaVentura Oct 31, 2022
ec65524
Ran release_prepare.py script.
ESapenaVentura Oct 31, 2022
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2 changes: 1 addition & 1 deletion docs/jsonBrowser/module.md
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Expand Up @@ -46,7 +46,7 @@ Location: module/protocol/matrix.json

Property name | Description | Type | Required? | Object reference? | User friendly name | Allowed values | Example
--- | --- | --- | --- | --- | --- | --- | ---
data_normalization_methods | Method(s) used to normalize data in the matrix | array | no | | Data normalization method(s) | CPM (counts per million), TPM (transcripts per kilobase million), RPKM (reads per kilobase of exon per million reads mapped), FPKM (fragments per kilobase of exon per million fragments mapped), DESeq2’s median of ratios, TMM (EdgeR’s trimmed mean of M values), SF (size factor), UQ (Upper quartile), Downsampling, other, unknown |
data_normalization_methods | Method(s) used to normalize data in the matrix | array | no | | Data normalization method(s) | CPM (counts per million), TPM (transcripts per kilobase million), RPKM (reads per kilobase of exon per million reads mapped), FPKM (fragments per kilobase of exon per million fragments mapped), DESeq2's median of ratios, TMM (EdgeR's trimmed mean of M values), SF (size factor), UQ (Upper quartile), Downsampling, other, unknown |
derivation_process | Type of computational tool used in generating the matrix object. | array | no | | Derivation process | alignment, quantification, peak calling, peak annotation, gene filtering, cell filtering, merging, cell calling, ambient RNA correction, doublet removal, batch correction, depth normalization, other |

## File content ontology<a name='File content ontology'></a>
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4 changes: 2 additions & 2 deletions json_schema/module/protocol/matrix.json
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Expand Up @@ -28,8 +28,8 @@
"TPM (transcripts per kilobase million)",
"RPKM (reads per kilobase of exon per million reads mapped)",
"FPKM (fragments per kilobase of exon per million fragments mapped)",
"DESeq2’s median of ratios",
"TMM (EdgeR’s trimmed mean of M values)",
"DESeq2's median of ratios",
"TMM (EdgeR's trimmed mean of M values)",
"SF (size factor)",
"UQ (Upper quartile)",
"Downsampling",
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1 change: 1 addition & 0 deletions json_schema/update_log.csv
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@@ -1 +1,2 @@
Schema,Change type,Change message,Version,Date
module/protocol/matrix,major,"Fixed typo in apostrophe. Fixes #1410",,