Skip to content

Commit

Permalink
πŸ˜΅β€πŸ’«
Browse files Browse the repository at this point in the history
  • Loading branch information
haeussma committed Oct 13, 2024
1 parent ac9a9d0 commit a1857d8
Show file tree
Hide file tree
Showing 60 changed files with 698 additions and 165 deletions.
247 changes: 247 additions & 0 deletions docs/model_diagram.json
Original file line number Diff line number Diff line change
@@ -0,0 +1,247 @@
{
"style": {
"node-color": "#ffffff",
"border-color": "#000000",
"caption-color": "#000000",
"arrow-color": "#000000",
"label-background-color": "#ffffff",
"directionality": "directed",
"arrow-width": 5
},
"nodes": [
{
"id": "n0",
"position": {
"x": 0,
"y": 0
},
"caption": "",
"style": {},
"labels": [
"StrictStructuredNode"
],
"properties": {}
},
{
"id": "n1",
"position": {
"x": 346.4101615137755,
"y": 199.99999999999997
},
"caption": "",
"style": {},
"labels": [
"Organism"
],
"properties": {
"taxonomy_id": "int - required",
"name": "str",
"domain": "str",
"kingdom": "str",
"phylum": "str",
"tax_class": "str",
"order": "str",
"family": "str",
"genus": "str",
"species": "str"
}
},
{
"id": "n2",
"position": {
"x": 2.4492935982947064e-14,
"y": 400.0
},
"caption": "",
"style": {},
"labels": [
"Site"
],
"properties": {
"site_id": "id - unique",
"name": "str",
"positions": "list[int] - required",
"annotation": "str - required"
}
},
{
"id": "n3",
"position": {
"x": -346.4101615137754,
"y": 200.00000000000014
},
"caption": "",
"style": {},
"labels": [
"Region"
],
"properties": {
"region_id": "id - unique",
"start": "int - required",
"end": "int - required",
"annotation": "str - required"
}
},
{
"id": "n4",
"position": {
"x": -346.4101615137755,
"y": -199.99999999999991
},
"caption": "",
"style": {},
"labels": [
"GOAnnotation"
],
"properties": {
"go_id": "str - required",
"term": "str",
"definition": "str"
}
},
{
"id": "n5",
"position": {
"x": -7.347880794884119e-14,
"y": -400.0
},
"caption": "",
"style": {},
"labels": [
"Protein"
],
"properties": {
"accession_id": "str - required",
"sequence": "str - required",
"name": "str",
"seq_length": "int - required",
"mol_weight": "float",
"ec_number": "str",
"nucleotide_id": "str",
"locus_tag": "str",
"structure_ids": "list[str]",
"go_terms": "list[str]",
"embedding": "list[float]"
}
},
{
"id": "n6",
"position": {
"x": 346.41016151377534,
"y": -200.00000000000017
},
"caption": "",
"style": {},
"labels": [
"DNA"
],
"properties": {
"accession_id": "str - required",
"sequence": "str - required",
"name": "str",
"seq_length": "int - required",
"go_terms": "list[str]",
"embedding": "list[float]",
"gc_content": "float"
}
}
],
"relationships": [
{
"id": "e0",
"type": "ORIGINATES_FROM",
"style": {},
"properties": {},
"fromId": "n5",
"toId": "n1"
},
{
"id": "e1",
"type": "ORIGINATES_FROM",
"style": {},
"properties": {},
"fromId": "n6",
"toId": "n1"
},
{
"id": "e2",
"type": "ASSOCIATED_WITH",
"style": {},
"properties": {},
"fromId": "n4",
"toId": "n5"
},
{
"id": "e3",
"type": "ASSOCIATED_WITH",
"style": {},
"properties": {},
"fromId": "n4",
"toId": "n6"
},
{
"id": "e4",
"type": "ORIGINATES_FROM",
"style": {},
"properties": {},
"fromId": "n5",
"toId": "n1"
},
{
"id": "e5",
"type": "HAS_SITE",
"style": {},
"properties": {},
"fromId": "n5",
"toId": "n2"
},
{
"id": "e6",
"type": "HAS_REGION",
"style": {},
"properties": {},
"fromId": "n5",
"toId": "n3"
},
{
"id": "e7",
"type": "ASSOCIATED_WITH",
"style": {},
"properties": {},
"fromId": "n5",
"toId": "n4"
},
{
"id": "e8",
"type": "ORIGINATES_FROM",
"style": {},
"properties": {},
"fromId": "n6",
"toId": "n1"
},
{
"id": "e9",
"type": "HAS_SITE",
"style": {},
"properties": {},
"fromId": "n6",
"toId": "n2"
},
{
"id": "e10",
"type": "HAS_REGION",
"style": {},
"properties": {},
"fromId": "n6",
"toId": "n3"
},
{
"id": "e11",
"type": "ASSOCIATED_WITH",
"style": {},
"properties": {},
"fromId": "n6",
"toId": "n4"
}
]
}
1 change: 1 addition & 0 deletions pyeed/__init__.py
Original file line number Diff line number Diff line change
@@ -0,0 +1 @@
from pyeed.pyeed import Pyeed
File renamed without changes.
Loading

0 comments on commit a1857d8

Please sign in to comment.