From e4cdb9819dac0268d4f0265ef256a3330e2164e1 Mon Sep 17 00:00:00 2001 From: Gesina Phillips Date: Tue, 5 Dec 2023 15:54:21 -0500 Subject: [PATCH] fix to rnaseq (with probes), cleanup rule_description --- .../assayclassifier/testing_rule_chain.json | 20 +++++++++---------- 1 file changed, 10 insertions(+), 10 deletions(-) diff --git a/src/routes/assayclassifier/testing_rule_chain.json b/src/routes/assayclassifier/testing_rule_chain.json index 589425fe..116ec83c 100644 --- a/src/routes/assayclassifier/testing_rule_chain.json +++ b/src/routes/assayclassifier/testing_rule_chain.json @@ -489,49 +489,49 @@ "type": "match", "match": "is_dcwg and dataset_type == 'RNAseq' and assay_input_entity == 'single cell' and barcode_read =~~ 'Not applicable' and barcode_size == 40 and barcode_offset == 'Not applicable' and umi_read =~~ 'Not applicable' and umi_size == 8 and umi_offset == 'Not applicable'", "value": "{'assaytype': 'sciRNAseq', 'vitessce_hints': [], 'dir_schema': 'scrnaseq-v2', 'description': 'sciRNA-seq'}", - "rule_description": "DCWG {assay}" + "rule_description": "DCWG sciRNAseq" }, { "type": "match", "match": "is_dcwg and dataset_type == 'RNAseq' and assay_input_entity == 'single nucleus' and barcode_read =~~ 'Read 1' and barcode_size == 24 and barcode_offset == '10,48,86' and umi_read =~~ 'Read 1' and umi_size == 10 and umi_offset == 0", "value": "{'assaytype': 'SNARE-RNAseq2', 'vitessce_hints': [], 'dir_schema': 'scrnaseq-v2', 'description': 'snRNAseq (SNARE-seq2)'}", - "rule_description": "DCWG {assay}" + "rule_description": "DCWG SNARE-RNAseq2" }, { "type": "match", "match": "is_dcwg and dataset_type == 'RNAseq' and assay_input_entity == 'spot' and barcode_read =~~ 'Read 1' and barcode_size == 16 and barcode_offset == 0 and umi_read =~~ 'Read 1' and umi_size == 12 and umi_offset == 16", "value": "{'assaytype': 'scRNAseq-10Genomics-v3', 'vitessce_hints': [], 'dir_schema': 'scrnaseq-v2', 'description': 'scRNA-seq (10x Genomics v3)'}", - "rule_description": "DCWG {assay}" + "rule_description": "DCWG scRNAseq-10Genomics-v3" }, { "type": "match", - "match": "is_dcwg and dataset_type == 'RNAseq (with probes)' and RNA_probe_panel == '10x Genomics; Visium Human Transcriptome Probe Kit v2 - Small; PN 1000466' and assay_input_entity == 'spot' and barcode_read =~~ 'Read 1' and barcode_size == 16 and barcode_offset == 0 and umi_read =~~ 'Read 1' and umi_size == 12 and umi_offset == 16", + "match": "is_dcwg and dataset_type == 'RNAseq (with probes)' and oligo_probe_panel == '10x Genomics; Visium Human Transcriptome Probe Kit v2 - Small; PN 1000466' and assay_input_entity == 'spot' and barcode_read =~~ 'Read 1' and barcode_size == 16 and barcode_offset == 0 and umi_read =~~ 'Read 1' and umi_size == 12 and umi_offset == 16", "value": "{'assaytype': 'scRNAseq-visium-with-probes', 'vitessce_hints': [], 'dir_schema': 'scrnaseq-v2', 'description': 'Visium RNAseq with probes'}", - "rule_description": "DCWG {assay}" + "rule_description": "DCWG scRNAseq-visium-with-probes" }, { "type": "match", "match": "is_dcwg and dataset_type == 'RNAseq' and assay_input_entity == 'single cell' and barcode_read =~~ 'Read 1' and barcode_size == 16 and barcode_offset == 0 and umi_read =~~ 'Read 1' and umi_size == 10 and umi_offset == 16", "value": "{'assaytype': 'scRNAseq-10xGenomics-v2', 'vitessce_hints': [], 'dir_schema': 'scrnaseq-v2', 'description': 'scRNA-seq (10x Genomics v2)'}", - "rule_description": "DCWG {assay}" + "rule_description": "DCWG scRNAseq-10xGenomics-v2" }, { "type": "match", "match": "is_dcwg and dataset_type == 'RNAseq' and assay_input_entity == 'single nucleus' and barcode_read =~~ 'Read 1' and barcode_size == 16 and barcode_offset == 0 and umi_read =~~ 'Read 1' and umi_size == 10 and umi_offset == 16", "value": "{'assaytype': 'snRNAseq-10xGenomics-v2', 'vitessce_hints': [], 'dir_schema': 'scrnaseq-v2', 'description': 'snRNA-seq (10x Genomics v2)'}", - "rule_description": "DCWG {assay}" + "rule_description": "DCWG snRNAseq-10xGenomics-v2" }, { "type": "match", "match": "is_dcwg and dataset_type == 'RNAseq' and assay_input_entity == 'single cell' and barcode_read =~~ 'Read 1' and barcode_size == 16 and barcode_offset == 0 and umi_read =~~ 'Read 1' and umi_size == 12 and umi_offset == 16", "value": "{'assaytype': 'scRNAseq-10xGenomics-v3', 'vitessce_hints': [], 'dir_schema': 'scrnaseq-v2', 'description': 'scRNA-seq (10x Genomics v3)'}", - "rule_description": "DCWG {assay}" + "rule_description": "DCWG scRNAseq-10xGenomics-v3" }, { "type": "match", "match": "is_dcwg and dataset_type == 'RNAseq' and assay_input_entity == 'single nucleus' and barcode_read =~~ 'Read 1' and barcode_size == 16 and barcode_offset == 0 and umi_read =~~ 'Read 1' and umi_size == 12 and umi_offset == 16", "value": "{'assaytype': 'snRNAseq-10xGenomics-v3', 'vitessce_hints': [], 'dir_schema': 'scrnaseq-v2', 'description': 'snRNA-seq (10x Genomics v3)'}", - "rule_description": "DCWG {assay}" + "rule_description": "DCWG snRNAseq-10xGenomics-v3" }, { "type": "match", @@ -671,4 +671,4 @@ "value": "{'assaytype': 'molecular-cartography', 'vitessce_hints': [], 'dir_schema': 'mc-v2', 'description': 'Molecular Cartography'}", "rule_description": "DCWG molecular-cartography" } -] \ No newline at end of file +]