Rest API for MetExplore content.
This API client was generated by the OpenAPI Generator project. By using the OpenAPI spec from a remote server, you can easily generate an API client.
- API version: 0.29.0
- Package version: 1.0.0
- Generator version: 7.9.0
- Build package: org.openapitools.codegen.languages.RClientCodegen
Install the dependencies
install.packages("jsonlite")
install.packages("httr")
install.packages("base64enc")git clone https://github.com/GIT_USER_ID/GIT_REPO_ID
cd GIT_REPO_ID
R CMD build .
R CMD check metexplore3api_1.0.0.tar.gz --no-manual
R CMD INSTALL --preclean metexplore3api_1.0.0.tar.gzinstall.packages("metexplore3api")To install directly from Github:
install.packages("remotes")
remotes::install_github("MetExplore/metexplore3api_client_r")To install the package from a local file:
install.packages("metexplore3api_1.0.0.tar.gz", repos = NULL, type = "source")library(metexplore3api)
# Spécifier l'identifiant du réseau
network_id <- 1
###########################
### Genes
###########################
# #Créer une instance de la classe GenesApi
api <- GenesApi$new()
# Appel de l’API pour récuperer les genes du réseau
result <- api$GETGENES(network_id)
results <- result$results
df_genes <- data.frame(
name = sapply(result$results, function(x) if (!is.null(x$name)) x$name else NA),
identifier = sapply(result$results, function(x) if (!is.null(x$db_identifier)) x$db_identifier else NA),
stringsAsFactors = FALSE)
View(df_genes)
###########################
### Proteins
###########################
api <- ProteinsApi$new()
result <- api$GETPROTEINS(NULL,network_id,NULL)
results <- result$results
df_proteins <- data.frame(
name = sapply(result$results, function(x) if (!is.null(x$name)) x$name else NA),
identifier = sapply(result$results, function(x) if (!is.null(x$db_identifier)) x$name else NA),
stringsAsFactors = FALSE)
View(df_proteins)
###########################
### Enzymes
###########################
api <- EnzymesApi$new()
#print(api$GETENZYMES)
result <- api$GETENZYMES(network_id)
results <- result$results
df_enzymes <- data.frame(
name = sapply(result$results, function(x) if (!is.null(x$name)) x$name else NA),
identifier = sapply(result$results, function(x) if (!is.null(x$db_identifier)) x$db_identifier else NA),
stringsAsFactors = FALSE)
View(df_enzymes)
###########################
### Reactions
###########################
api <- ReactionsApi$new()
result <- api$GETREACTIONS(network_id)
results <- result$results
df_reactions <- data.frame(
name = sapply(result$results, function(x) if (!is.null(x$name)) x$name else NA),
identifier = sapply(result$results, function(x) if (!is.null(x$db_identifier)) x$db_identifier else NA),
ec = sapply(result$results, function(x) if (!is.null(x$ec)) x$ec else NA),
stringsAsFactors = FALSE)
View(df_reactions)
###########################
### Metabolites
###########################
api <- MetabolitesApi$new()
response <- api$GETMETABOLITESWithHttpInfo(id_network = network_id)
if (response$status_code >= 200 && response$status_code < 300) {
json <- response$response_as_text()
parsed <- jsonlite::fromJSON(json, simplifyDataFrame = TRUE)
}
else {
stop("Erreur lors de l'appel API : ", response$status_code)
}
df_metabolites <- parsed$results
View(df_metabolites)
###########################
### Pathways
###########################
api <- PathwaysApi$new()
result <- api$GETPATHWAYS(NULL,network_id, NULL)
results <- result$results
df_pathways <- data.frame(
name = sapply(result$results, function(x) if (!is.null(x$name)) x$name else NA),
identifier = sapply(result$results, function(x) if (!is.null(x$db_identifier)) x$db_identifier else NA),
stringsAsFactors = FALSE)
View(df_pathways)
All URIs are relative to https://metexplore.toulouse.inrae.fr/metexplore3-api
| Class | Method | HTTP request | Description |
|---|---|---|---|
| CollectionsApi | GETCOLLECTIONS | GET /collections | get Metabolic Network Collections |
| CompartmentsApi | GETCOMPARTMENTS | GET /compartments | get compartments in a network |
| EnzymesApi | GETENZYMES | GET /enzymes | get Enzyme |
| GenesApi | GETGENES | GET /genes | get Gene |
| MappingApi | MAPPINGGENESIDS | POST /mapping/genes/ids | Map genes ids onto a metabolic Network |
| MappingApi | MAPPINGMETABOLITESIDS | POST /mapping/metabolites/ids | Map metabolic ids onto a metabolic Network |
| MappingApi | MAPPINGREACTIONSIDS | POST /mapping/reactions/ids | Map reactions ids onto a metabolic Network |
| MetabolitesApi | GETMETABOLITES | GET /metabolites | get Metabolite |
| NetworksApi | GETNETWORKS | GET /networks | Get all networks or one network |
| NetworksApi | NETWORKCOUNT | GET /networks/count | get the number of all biodatas in a network |
| PathwaysApi | GETPATHWAYS | GET /pathways | get Pathway |
| ProteinsApi | GETPROTEINS | GET /proteins | get Protein |
| ReactionsApi | GETREACTIONS | GET /reactions | get Reaction |
- BaseResponse
- Collection
- CollectionEntity
- CollectionResponse
- CollectionsResponse
- Compartment
- CompartmentResponse
- CompartmentsResponse
- CompoundsName
- CountResponse
- CountResponseAllOfCount
- Edge
- Enrichment
- Entity
- Enzyme
- EnzymeResponse
- EnzymesResponse
- GETNETWORKS200Response
- Gene
- GeneResponse
- GenesResponse
- Graph
- GraphResponse
- GraphResponseAllOfResult
- GraphsResponse
- MappingInputTable
- MappingOutput
- MappingOutputEntities
- MappingQuery
- MappingResponse
- Metabolite
- MetabolitesResponse
- Network
- NetworkEntity
- NetworkResponse
- NetworksResponse
- Node
- Pathway
- PathwayResponse
- PathwaysResponse
- Permission
- Protein
- ProteinResponse
- ProteinsResponse
- Reaction
- ReactionsResponse
- ResultStringResponse
- StatisticsMapping
Authentication schemes defined for the API:
- Type: Bearer authentication
- Bearer Format: JWT
- Type: API key
- API key parameter name: x-app-key
- Location: HTTP header