Package: gtexr 0.2.0.9001
Alasdair Warwick
gtexr: Query the GTEx Portal API
A convenient R interface to the Genotype-Tissue Expression (GTEx) Portal API. The GTEx project is a comprehensive public resource for studying tissue-specific gene expression and regulation in human tissues. Through systematic analysis of RNA sequencing data from 54 non-diseased tissue sites across nearly 1000 individuals, GTEx provides crucial insights into the relationship between genetic variation and gene expression. This data is accessible through the GTEx Portal API enabling programmatic access to human gene expression data. For more information on the API, see <https://gtexportal.org/api/v2/redoc>.
Authors:
gtexr_0.2.0.9001.tar.gz
gtexr_0.2.0.9001.zip(r-4.6)gtexr_0.2.0.9001.zip(r-4.5)gtexr_0.2.0.9001.zip(r-4.4)
gtexr_0.2.0.9001.tgz(r-4.5-any)gtexr_0.2.0.9001.tgz(r-4.4-any)
gtexr_0.2.0.9001.tar.gz(r-4.6-any)gtexr_0.2.0.9001.tar.gz(r-4.5-any)
gtexr_0.2.0.9001.tgz(r-4.4-emscripten)
gtexr.pdf |gtexr.html✨
gtexr/json (API)
NEWS
| # Install 'gtexr' in R: |
| install.packages('gtexr', repos = c('https://ropensci.r-universe.dev', 'https://cloud.r-project.org')) |
Reviews:rOpenSci Software Review #684
Bug tracker:https://github.com/ropensci/gtexr/issues
Pkgdown site:https://docs.ropensci.org
api-wrapperbioinformaticseqtlgtexsqtl
Last updated 12 days agofrom:1e4c677c40 (on main). Checks:11 OK. Indexed: yes.
| Target | Result | Total time |
|---|---|---|
| pkgdown docs | OK | 489 |
| source / vignettes | OK | 168 |
| linux-devel | OK | 123 |
| linux-release | OK | 123 |
| macos-release-arm64 | OK | 72 |
| macos-oldrel-arm64 | OK | 68 |
| windows-devel | OK | 86 |
| windows-release | OK | 90 |
| windows-oldrel | OK | 87 |
| wasm-release | OK | 169 |
| wasm-oldrel | OK | 165 |
Exports:calculate_expression_quantitative_trait_locicalculate_ieqtlscalculate_isqtlscalculate_splicing_quantitative_trait_locidownloadget_annotationget_clustered_median_exon_expressionget_clustered_median_gene_expressionget_clustered_median_junction_expressionget_clustered_median_transcript_expressionget_collapsed_gene_model_exonget_dataset_infoget_downloads_page_dataget_eqtl_genesget_exonsget_expression_pcaget_file_listget_fine_mappingget_full_get_collapsed_gene_model_exonget_functional_annotationget_gene_expressionget_gene_searchget_genesget_genomic_featuresget_gwas_catalog_by_locationget_imageget_independent_eqtlget_linkage_disequilibrium_by_variant_dataget_linkage_disequilibrium_dataget_maintenance_messageget_median_exon_expressionget_median_gene_expressionget_median_junction_expressionget_median_transcript_expressionget_multi_tissue_eqtlsget_neighbor_geneget_news_itemget_sample_biobank_dataget_sample_datasetsget_service_infoget_significant_single_tissue_eqtlsget_significant_single_tissue_eqtls_by_locationget_significant_single_tissue_ieqtlsget_significant_single_tissue_isqtlsget_significant_single_tissue_sqtlsget_single_nucleus_gexget_single_nucleus_gex_summaryget_sqtl_genesget_subjectget_tissue_site_detailget_top_expressed_genesget_transcriptsget_variantget_variant_by_location
Dependencies:askpassclicpp11curldplyrfansigenericsgluehttr2lifecyclemagrittropensslpillarpkgconfigpurrrR6rappdirsrlangstringistringrsystibbletidyrtidyselectutf8vctrswithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Calculate Expression Quantitative Trait Loci | calculate_expression_quantitative_trait_loci |
| Calculate Ieqtls | calculate_ieqtls |
| Calculate Isqtls | calculate_isqtls |
| Calculate Splicing Quantitative Trait Loci | calculate_splicing_quantitative_trait_loci |
| Download | download |
| Get Annotation | get_annotation |
| Get Clustered Median Exon Expression | get_clustered_median_exon_expression |
| Get Clustered Median Gene Expression | get_clustered_median_gene_expression |
| Get Clustered Median Junction Expression | get_clustered_median_junction_expression |
| Get Clustered Median Transcript Expression | get_clustered_median_transcript_expression |
| Get Collapsed Gene Model Exon | get_collapsed_gene_model_exon |
| Get Dataset Info | get_dataset_info |
| Get Downloads Page Data | get_downloads_page_data |
| Get Eqtl Genes | get_eqtl_genes |
| Get Exons | get_exons |
| Get Expression Pca | get_expression_pca |
| Get File List | get_file_list |
| Get Fine Mapping | get_fine_mapping |
| Get Full Get Collapsed Gene Model Exon | get_full_get_collapsed_gene_model_exon |
| Get Functional Annotation | get_functional_annotation |
| Get Gene Expression | get_gene_expression |
| Get Gene Search | get_gene_search |
| Get Genes | get_genes |
| Get Genomic Features | get_genomic_features |
| Get Gwas Catalog By Location | get_gwas_catalog_by_location |
| Get Image | get_image |
| Get Independent Eqtl | get_independent_eqtl |
| Get Linkage Disequilibrium By Variant Data | get_linkage_disequilibrium_by_variant_data |
| Get Linkage Disequilibrium Data | get_linkage_disequilibrium_data |
| Get Maintenance Message | get_maintenance_message |
| Get Median Exon Expression | get_median_exon_expression |
| Get Median Gene Expression | get_median_gene_expression |
| Get Median Junction Expression | get_median_junction_expression |
| Get Median Transcript Expression | get_median_transcript_expression |
| Get Multi Tissue Eqtls | get_multi_tissue_eqtls |
| Get Neighbor Gene | get_neighbor_gene |
| Get News Item | get_news_item |
| Get Sample (Biobank Data) | get_sample_biobank_data |
| Get Sample (Datasets) | get_sample_datasets |
| Get Service Info | get_service_info |
| Get Significant Single Tissue Eqtls | get_significant_single_tissue_eqtls |
| Get Significant Single Tissue eQTLs By Location | get_significant_single_tissue_eqtls_by_location |
| Get Significant Single Tissue Ieqtls | get_significant_single_tissue_ieqtls |
| Get Significant Single Tissue Isqtls | get_significant_single_tissue_isqtls |
| Get Significant Single Tissue Sqtls | get_significant_single_tissue_sqtls |
| Get Single Nucleus Gex | get_single_nucleus_gex |
| Get Single Nucleus Gex Summary | get_single_nucleus_gex_summary |
| Get Sqtl Genes | get_sqtl_genes |
| Get Subject | get_subject |
| Get Tissue Site Detail | get_tissue_site_detail |
| Get Top Expressed Genes | get_top_expressed_genes |
| Get Transcripts | get_transcripts |
| Get Variant | get_variant |
| Get Variant By Location | get_variant_by_location |
