NEWS

ICIKendallTau 1.2.7

Fixed a bug where the check_timing wasn't taking the right arguments, and wasn't actually calculating what it should.
Added the completeness metric to the output of ici_kt (and therefore to ici_kendalltau) (closes #23).
Added more tests (closes #22 for now).

Fixed a bug where passing a two vector list is supposed to restrict the comparisons to just those provided, but instead did all possible pairwise comparisons between the two things and all others available.

Refactored much of ici_kendalltau, making the code more consistent and easier to extend, as well as providing more informative error messages. Thanks to @njtierney for suggestions.
Also refactored kt_fast to be more consistent and use more functions internally. Note: now returns matrix or data.frame regardless of whether passing simply two vectors or a matrix input.
Added alternative and continuity arguments to both ici_kendalltau and kt_fast.
Added cor_fast to allow running many iterations of cor.test on large matrix inputs if desired, with parallel processing to speed things up.

makes rank_order_data take a sample class argument to enable splitting out by class.

adds the rank_order_data function to help with visualizing the pattern of missingness with respect to the rank of the rows.
adds the yeast_missing dataset as a more realistic dataset for running the test_left_censorship and rank_order_data.

adds the function test_left_censorship to verify if ici_kendalltau is appropriate to use on the data or not.

kt_fast now uses the same data.frame format for output as ici_kendalltau, but returns a matrix by default. The data.frame is useful when large amounts of comparisons are run.

Handling parallel execution differently to avoid really large matrix issues on each core.
Introduces the return_matrix parameter to ici_kendalltau that allows to return the results in the form of a data.frame instead of lists of matrices.

Provide the kt_fast function that handles missing or NA values similarly to the stats::cor function, but uses our ici_kt fast function underneath.

Made all error outputs the same length as the default output but containing NA.
Check for the case when one of the variables in ici_kt has all identical arguments, warns the user and returns NA.

Added new argument include_only to ici_kendalltau that allows the user to define which of the pairwise correlations to actually do.

Switched pairwise_completeness to also use the global_na parameter.
Oh yes, there is a function pairwise_completeness to enable scaling by the completeness between any two samples.

Updated the API to use a single variable, global_na that defines all the values that should be set to NA for the correlation calculation.
This is a big API change, so we bumped the version up to 0.1.

Fixing a bug where if there are 55,000 elements in the vector, some of the match overflows from 32 bit to 64 bit, and results make no sense.

Fixed a bug where instead of returning a two element vector, it only returned a zero length value. This probably only happened when one of the entries contained all NA values, or you tried to pass "vectors" with less than two entries.

Fixing things that came up with R CMD check in the documentation. Should be all good now (I hope).

Added tests!
Removed a bunch of code that wasn't necessary because it was using the incorrect formula's, and we have the correct version in the ici_kt_pairs function for reference purposes.

First release. It's been tested and used rather thoroughly by myself, but I'd say it's still rather alpha. Even though I use it all the time myself.
Added a NEWS.md file to track changes to the package.