Merge pull request #24 from uc-cdis/canine

chore(canine): remove all human related properties

Author: wangfan860

gdcdictionary/schemas/aggregated_genotyping_array.yaml

@@ -90,10 +90,13 @@ properties:
     term:
       $ref: "_terms.yaml#/platform"
     enum:
-      - Illumina Infinium HumanExome BeadChip
       - Illumina OMNI 5M SNP Array
       - Illumina OMNI 2.5M SNP Array
-      - Affymetrix Genome-Wide Human SNP Array 6.0
+      - Illumina Infinium 20K Canine SNP Beadchip
+      - Illumina CanineHD BeadChip
+      - Affymetrix GeneChip Canine Genome Array
+      - Axiom Canine Genotyping Array
+      - Illumina CanineSNP20 BeadChip
 
   genotyping_arrays:
     $ref: "_definitions.yaml#/to_many"

gdcdictionary/schemas/genotyping_array.yaml

@@ -88,13 +88,11 @@ properties:
     term:
       $ref: "_terms.yaml#/platform"
     enum:
-      - Illumina Infinium HumanExome BeadChip
       - Illumina OMNI 5M SNP Array
       - Illumina OMNI 2.5M SNP Array
-      - Affymetrix Genome-Wide Human SNP Array 6.0
       - Illumina Infinium 20K Canine SNP Beadchip
       - Illumina CanineHD BeadChip
-      - Affymetrix GeneChip Canine Genome Array 
+      - Affymetrix GeneChip Canine Genome Array
       - Axiom Canine Genotyping Array
       - Illumina CanineSNP20 BeadChip
   plat:

gdcdictionary/schemas/sample.yaml

@@ -462,7 +462,7 @@ properties:
       - EBV Immortalized
       - Fibroblasts from Bone Marrow Normal
       - Granulocytes
-      - Human Original Cells
+      - Canine Original Cells
       - Lymphocytes
       - Mononuclear Cells from Bone Marrow Normal
       - Peripheral Blood Components NOS
@@ -514,7 +514,7 @@ properties:
       - Fibroblasts from Bone Marrow Normal
       - GenomePlex (Rubicon) Amplified DNA
       - Granulocytes
-      - Human Tumor Original Cells
+      - Canine Tumor Original Cells
       - Metastatic
       - Mononuclear Cells from Bone Marrow Normal
       - Primary Blood Derived Cancer - Peripheral Blood

gdcdictionary/schemas/submitted_genomic_profile.yaml

@@ -74,6 +74,7 @@ properties:
       - VCF
       - XML
       - TXT
+      - PLINK
 
   data_type:
     term:

gdcdictionary/schemas/submitted_methylation.yaml

@@ -71,8 +71,9 @@ properties:
     description: >
       The specific model of instrument used to perform the assay.
     enum:
-      - Illumina Infinium HumanMethylation450
-      - Illumina Infinium HumanMethylation450K
+      - Illumina Infinium Methylation 450
+      - Illumina Infinium Methylation 450K
+      - Illumina Infinium Methylation 850K
 
   data_category:
     term:

gdcdictionary/schemas/tangent_copy_number.yaml

@@ -97,11 +97,13 @@ properties:
     term:
       $ref: "_terms.yaml#/platform"
     enum:
-      - Illumina Infinium HumanExome BeadChip
       - Illumina OMNI 5M SNP Array
       - Illumina OMNI 2.5M SNP Array
-      - Affymetrix Genome-Wide Human SNP Array 6.0
       - Illumina Infinium 20K Canine SNP Beadchip
+      - Illumina CanineHD BeadChip
+      - Affymetrix GeneChip Canine Genome Array
+      - Axiom Canine Genotyping Array
+      - Illumina CanineSNP20 BeadChip
 
   genotyping_arrays:
     $ref: "_definitions.yaml#/to_one"