From 06c9b1b8988051936ad01c2fc6a80d58b74a0659 Mon Sep 17 00:00:00 2001
From: Maiykol <hartung.michael@outlook.com>
Date: Thu, 17 Jun 2021 11:05:37 +0200
Subject: [PATCH] user input for different PDI and PPI datasets
---
src/app/config.ts | 9 ++++++++-
.../dialogs/launch-analysis/launch-analysis.component.ts | 4 ++--
2 files changed, 10 insertions(+), 3 deletions(-)
diff --git a/src/app/config.ts b/src/app/config.ts
index 82737376..9c07b45a 100644
--- a/src/app/config.ts
+++ b/src/app/config.ts
@@ -19,8 +19,11 @@ export interface EdgeGroup {
color: string;
}
-export type Identifier = 'hugo'|'uniprot';
+export type Identifier = 'hugo'|'uniprot'|'ensg';
+export type InteractionDrugProteinDB = 'DrugBank'|'Chembl'|'DGIdb';
+export type InteractionProteinProteinDB = 'STRING'|'BioGRID'|'APID';
+// TODO: should this be external or integrated in the backend?
export type InteractionDatabase = 'omnipath';
export interface IConfig {
@@ -43,6 +46,8 @@ export interface IConfig {
showLegendEdges: boolean;
nodeGroups: { [key: string]: NodeGroup };
edgeGroups: { [key: string]: EdgeGroup };
+ interactionDrugProtein: InteractionDrugProteinDB;
+ interactionProteinProtein: InteractionProteinProteinDB;
interactions?: InteractionDatabase;
identifier?: Identifier;
}
@@ -66,6 +71,8 @@ export const defaultConfig: IConfig = {
showFooter: true,
showLegend: true,
identifier: 'hugo',
+ interactionDrugProtein: 'DrugBank',
+ interactionProteinProtein: 'STRING',
nodeGroups: {
default: {
name: 'Default Group',
diff --git a/src/app/dialogs/launch-analysis/launch-analysis.component.ts b/src/app/dialogs/launch-analysis/launch-analysis.component.ts
index 9493b61e..154cae08 100644
--- a/src/app/dialogs/launch-analysis/launch-analysis.component.ts
+++ b/src/app/dialogs/launch-analysis/launch-analysis.component.ts
@@ -1,5 +1,4 @@
import {Component, EventEmitter, Input, OnChanges, OnInit, Output, SimpleChanges} from '@angular/core';
-import { NetexControllerService } from 'src/app/services/netex-controller/netex-controller.service';
import {
Algorithm,
AlgorithmType,
@@ -10,7 +9,6 @@ import {
QuickAlgorithmType,
TRUSTRANK
} from '../../services/analysis/analysis.service';
-import {Wrapper} from '../../interfaces';
import { IConfig } from 'src/app/config';
@Component({
@@ -110,6 +108,8 @@ export class LaunchAnalysisComponent implements OnInit, OnChanges {
input_network: this.inputNetwork
};
+ parameters.ppi_dataset = this.config.interactionProteinProtein;
+ parameters.pdi_dataset = this.config.interactionDrugProtein;
parameters.target = this.target === 'drug' ? 'drug' : 'drug-target';
// pass network data to reconstruct network in analysis result to connect non-proteins to results
// drop interactions in nodes beforehand to no cause cyclic error, information is contained in edges
--
GitLab