gtexr - gtexr 0.2.1

Major changes

• Breaking changes:

  • get_sample_datasets() has been fixed to return a tibble with one row per data item (#24).

Scientific Software - Peer-reviewed - R
Published by rmgpanw 6 months ago

gtexr - JOSS-Zenodo

Addresses https://github.com/openjournals/joss-reviews/issues/8249#issuecomment-2909636716

Scientific Software - Peer-reviewed - R
Published by rmgpanw 9 months ago

gtexr - gtexr 0.2.0

Major changes

• All functions now include a .return_raw argument, enabling the user to retrieve the raw JSON from API calls.

• Functions that return a paginated response now include a .verbose argument, which can be set to FALSE to suppress pagination messages. The itemsPerPage argument for these functions can also be set globally by adjusting option "gtexr.itemsPerPage".

• get_dataset_info() has now been fixed (previously returned an empty tibble).

• Breaking changes:

  • get_sample_datasets_endpoints() has been renamed to get_sample_datasets(). This is to match the naming convention used for get_sample_biobank_data(), whereby 'getsample' is appended with their respective category titles 'datasets' and 'biobankdata'.
  • get_multi_tissue_eqtls() has been fixed to return a tibble with one row per data item. Argument gencodeIds has also been renamed to gencodeId to match the GTEx API.

Minor changes and bug fixes

• Various function arguments have been updated to match the GTEx API:

  • get_sqtl_genes() argument tissueSiteDetailId has been pluralised to tissueSiteDetailIds.
  • get_eqtl_genes(), get_sqtl_genes(), get_exons(), get_neighbor_gene(), get_subject(), get_tissue_site_detail(), get_significant_single_tissue_sqtls(), download() and get_sample_datasets() (formerly called get_sample_datasets_endpoints()) default argument values now match API.

Scientific Software - Peer-reviewed - R
Published by rmgpanw 10 months ago

gtexr - gtexr 0.1.0

• Initial CRAN submission.

Scientific Software - Peer-reviewed - R
Published by rmgpanw over 1 year ago