blob: a072bd78e60c8cefe5978468385dfe8a476d96d0 (
plain)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
|
$base: http://biohackathon.org/bh20-seq-schema
$namespaces:
sch: https://schema.org/
efo: http://www.ebi.ac.uk/efo/
obo: http://purl.obolibrary.org/obo/
sio: http://semanticscience.org/resource/
edam: http://edamontology.org/
evs: http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#
$graph:
- name: hostSchema
type: record
fields:
host_species:
type: string
jsonldPredicate:
_id: http://www.ebi.ac.uk/efo/EFO_0000532
host_id:
type: string
jsonldPredicate:
_id: http://semanticscience.org/resource/SIO_000115
host_common_name:
type: string?
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/NOMEN_0000037
host_sex:
type: string
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/PATO_0000047
host_age:
type: int?
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/PATO_0000011
host_age_unit:
type: string?
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/UO_0000036
host_health_status:
type: string?
jsonldPredicate: http://purl.obolibrary.org/obo/NCIT_C25688
host_treatment:
type: string?
jsonldPredicate:
_id: http://www.ebi.ac.uk/efo/EFO_0000727
host_vaccination:
type: string?
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/VO_0000001
additional_host_information:
type: string?
jsonldPredicate:
_id: http://semanticscience.org/resource/SIO_001167
- name: sampleSchema
type: record
fields:
collector_name:
type: string
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/OBI_0001895
collecting_institution:
type: string
jsonldPredicate:
_id: http://semanticscience.org/resource/SIO_001167
specimen_source:
type: string?
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/OBI_0001479
collection_date:
type: string?
jsonldPredicate:
_id: http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#C25164
collection_location:
type: string?
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/GAZ_00000448
sample_storage_conditions:
type: string?
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/OBI_0001472
additional_collection_information:
type: string?
jsonldPredicate:
_id: http://semanticscience.org/resource/SIO_001167
sample_id:
type: string
jsonldPredicate:
_id: http://semanticscience.org/resource/SIO_000115
source_database_accession:
type: string?
jsonldPredicate:
_id: http://edamontology.org/data_2091
- name: virusSchema
type: record
fields:
virus_species:
type: string?
jsonldPredicate:
_id: http://edamontology.org/data_1875
virus_strain:
type: string?
jsonldPredicate:
_id: http://semanticscience.org/resource/SIO_010055
- name: technologySchema
type: record
fields:
sample_sequencing_technology:
type: string
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/OBI_0600047
sequence_assembly_method:
type: string?
jsonldPredicate:
_id: http://www.ebi.ac.uk/efo/EFO_0002699
sequencing_coverage:
type: string?
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/FLU_0000848
- name: submitterSchema
type: record
fields:
submitter_name:
type: string
jsonldPredicate:
_id: http://semanticscience.org/resource/SIO_000116
submitter_date:
type: string
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/NCIT_C94162
submitter_address:
type: string?
jsonldPredicate:
_id: http://semanticscience.org/resource/SIO_000172
originating_lab:
type: string
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/NCIT_C37984
lab_address:
type: string?
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/OBI_0600047
provider_sample_id:
type: string?
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/NCIT_C37900
submitter_sample_id:
type: string?
jsonldPredicate:
_id: http://www.ebi.ac.uk/efo/EFO_0001741
authors:
type: string?
jsonldPredicate:
_id: http://purl.obolibrary.org/obo/NCIT_C42781
submitter_id:
type: string?
jsonldPredicate:
_id: http://semanticscience.org/resource/SIO_000115
- name: MainSchema
type: record
documentRoot: true
fields:
host: hostSchema
sample: sampleSchema
virus: virusSchema?
technology: technologySchema
submitter: submitterSchema
submission:
type: string
jsonldPredicate:
_id: "@id"
#_type: "@id"
id:
doc: The subject (eg the fasta/fastq file) that the metadata describes
type: string?
jsonldPredicate:
_id: "@id"
_type: "@id"
|
