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ieugwasr 1.2.0

• associations() now returns the processed tibble. Previously its ... %>% return() inside a pipe did not return from the function (since magrittr 2.0), so the raw server data frame was returned instead, with n as character.
• Remove the flipping of beta for ukb-e datasets in associations(), tophits() and phewas(). The flip was never applied in associations() (see above), and the OpenGWAS server is the right place to correct these datasets.
• Replace %>% return() with explicit return() calls throughout.
• Update some GitHub Actions workflows, including no longer testing on R before R 4.1 due to the new testthat requirements
• Tweak an API test
• Bump version of roxygen2
• Fix a typo in the documentation for ld_clump()
• Bump minimum required version of R to 4.1
• Update some URLs in the package
• Fix some typos in the docs
• Forward ... to api_query() in variants_chrpos()
• Prevent divide-by-zero chunking in associations()
• Handle NULL opengwas_jwt in api_query()
• Close connection in afl2_list() hapmap3 branch
• Harden fill_n() against empty or multi-row gwasinfo() results
• Use getOption() instead of copying the full options list
• Remove dead shadowing assignment in associations()
• Use seq_along()/seq_len() instead of 1:length() loop bounds
• Align ld_clump_api() defaults with its documentation
• Make get_query_content() error path robust to non-JSON bodies
• Fix empty-result check in tophits() (closes #76)
• Supply origin to as.POSIXct() in allowance reset handling (closes #103)
• Remove utils from Suggests, since it’s a Base package

ieugwasr 1.1.0

• Improved error handling
• Managing new API limits on associations endpoint
• Updated header info passed to API

ieugwasr 1.0.4

• Improved warning messages in ld_clump() (thanks @DarwinAwardWinner).
• ld_clump() and ld_matrix() now search for the plink binary as documented (thanks @DarwinAwardWinner).
• Made some minor amends in the helpfiles and vignettes including: fixing typos, replacing all references to MR-Base with OpenGWAS, and improving the gwasinfo_files() helpfile.
• Fixed bug in headers code in api_query() (thanks @Gaoyan152).

ieugwasr 1.0.3

• Add gwasinfo_files() function to return for each dataset specified the download URL for each file (.vcf.gz, .vcf.gz.tbi, _report.html) associated with the dataset. The URLs will expire in 2 hours.

ieugwasr 1.0.2

• Bump roxygen2 version
• Update OpenGWAS API URL

ieugwasr 1.0.1

• Checking for allowance depletion, and erroring until the allowance is reset
• Import the magrittr pipe (thanks @Bhashitha2014)

ieugwasr 1.0.0

• Introducing JWT authorisation for the API
• Phasing out Google Oauth2 authorisation
• Added user() function to get user information
• Fixing issue with anonymous functions and backwards compatibility
• Bug in tophits when result is empty
• Removing version check at startup
• Bug in querying when errors returned
• Removing unnecessary dependencies and vignettes

ieugwasr 0.2.2

• Reinstating https://api.opengwas.org/api/ as the API server address
• Fixing issues with tests failing when server load is an issue

ieugwasr 0.2.1

• Updating API server address temporarily
• Modifying tests to manage API server load
• Fixes to load/attach behaviour

ieugwasr 0.2.0

• Moving API address to https://api.opengwas.org/api/
• Fixing issues for CRAN release

ieugwasr 0.1.7

• Added functions to write LD scores files into compressed .gz files for each super-population and divided by chromosomes.
• Added argument to output gwasglue2 objects in ieugwasr::tophits() and ieugwasr::associations().

ieugwasr 0.1.6

• Adding messaging about package version

• Adding messaging about OpenGWAS # ieugwasr 0.1.5

• Added options to perform LD functions on different super-populations

• Catching 503 error codes and retrying up to 5 times. This should help avoid fails when the server is busy.

ieugwasr 0.1.4

• Bug fixes in clumping. Thanks to bethleegy for pointing this out

ieugwasr 0.1.3

• Bug fixes in clumping

ieugwasr 0.1.2

• Updated API address

ieugwasr 0.1.1

• Fixed bug in ld_clump - wasn’t doing all traits

ieugwasr 0.1.0

• First release in conjunction with API

ieugwasr 0.0.0.9000

• Added a NEWS.md file to track changes to the package.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.