confseq 0.0.5

Confidence sequences and uniform boundaries

Confidence sequences and uniform boundaries

This library supports calculation of uniform boundaries, confidence sequences, and always-valid p-values. These constructs are useful in sequential A/B testing, best-arm identification, and other sequential statistical procedures. The library is written in C++ with Python and R interfaces. The main reference is

Howard, S. R., Ramdas, A., McAuliffe, J., and Sekhon, J. (2018), Uniform, nonparametric, non-asymptotic confidence sequences, preprint, arXiv:1810.08240.

Additionally, the library includes some functions for quantile confidence sequences and A/B testing based on

Howard, S. R. and Ramdas, A. (2019), Sequential estimation of quantiles with applications to A/B-testing and best-arm identification, preprint, arXiv:1906.09712.

This library is in early-stage development and should not be considered stable. I have tested it only on Python 3.7.0 and R 3.6.1 on macOS Mojave. The implementation is in C++ and a compiler with C++14 support is required to build the package, as well as the Boost C++ headers.

In the Python package, functions are split across modules by topic, as detailed below. In the R package, all functions mentioned below are exported in a single namespace.

Installing the python package

Run pip3 install confseq at the command line.

Installing the R package

Run the following in the R console:

install.packages('devtools')
devtools::install_github('gostevehoward/confseq/r_package')

Demos

Estimating average treatment effect in a randomized trial

demo/ate_demo.py illustrates how to compute a confidence sequence for average treatment effect in a randomized trial with bounded potential outcomes, along with an always-valid p-value sequence. The method is based on Corollary 2 of the paper and uses the gamma-exponential mixture boundary. This demo requires numpy and pandas.

Quantile confidence sequences

demo/quantiles.py illustrates how to use some of the included boundaries to construct confidence sequences for quantiles based on a stream of i.i.d. samples. The file includes a function to estimate a single, fixed quantile, as well as a function to estimate all quantiles simultaneously, with error control uniform over quantiles and time.

Uniform boundaries

The confseq.boundaries Python module implements several uniform boundaries from the confidence sequences paper.

• There are four mixture boundaries. These are implemented by the functions <TYPE>_log_mixture() and <TYPE>_mixture_bound(), where <TYPE> is one of normal (Propositions 4 and 5), gamma_exponential (Proposition 8), gamma_poisson (Proposition 9), or beta_binomial (Propositions 6 and 7).

  • <TYPE>_log_mixture(s, v, ...) returns the logarithm of the mixture supermartingale when called with S_t, the martingale, and V_t, the intrinsic time process. The reciprocal of the exponential of this value is an always-valid p-value. These functions are denoted log(m(s,v)) in the paper.
  • <TYPE>_mixture_bound(v, alpha, ...) returns the uniform boundary with crossing probability at most alpha, evaluated at intrinsic time v.

  Each function takes another required argument v_opt and an optional argument alpha_opt=0.05. These arguments are used to set the tuning parameter for each mixture, denoted by rho or r in the paper, optimizing the uniform boundary with crossing probability alpha_opt for intrinsic time v_opt. Such tuning is discussed in section 3.5 of the paper.

  The gamma-exponential and gamma-Poisson mixtures also require a scale parameter c. The beta-binomial mixture requires range parameters g and h. Finally, the normal_* and beta_binomial_* functions accept an optional boolean parameter is_one_sided which is True by default. If False, the two-sided variants of these mixtures are used (Propositions 4 and 6).

• The polynomial stitching boundary (see Theorem 1 and the subsequent example) is implemented by poly_stitching_bound. Besides v and alpha, this function requires the tuning parameter v_min as well as optional parameters c, s, and eta, all documented in the paper.

• This module also includes a bernoulli_confidence_interval function which computes confidence sequences for the mean of any distribution with bounded support by making use of the sub-Bernoulli condition. Observations must be scaled so that the support is within the unit interval [0, 1].

All functions accept NumPy arrays in Python or vectors in R and perform vectorized operations.

Quantile bounds

The confseq.quantiles Python module implements two quantile-uniform confidence sequences from the quantile paper.

• empirical_process_lil_bound is based on Theorem 2, and can be used to construct iterated-logarithm-rate confidence sequences for quantiles in which the confidence radius (in quantile space) is constant for all quantiles. This can also be used run the sequential Kolmogorov-Smirnov test described in section 7.2.
• double_stitching_bound is based on Theorem 3, and can be used to construct confidence sequences for quantiles in which the confidence radius (in quantile space) varies, getting smaller for extreme quantiles close to zero and one.

Finally, quantile_ab_p_value implements the two-sided sequential test of the hypothesis that two populations have equal values for some quantile, based on Theorem 5. The theorem covers tests of null hypothesis other than equality, as well as one-sided tests, but these are not yet implemented.

C++ library

The underlying implementation is in a single-file, header-only C++ library in src/confseq/uniform_boundaries.h. The top of the file defines a simplified interface mirroring the Python interface described above. Below that is an object-oriented interface useful for more involved work. The confseq.boundaries Python module is a wrapper generated by pybind11. The R package uses Rcpp.

Unit tests

Run make -C /path/to/confseq/tests runtests to run the C++ unit tests.

Citing this software

Howard, S. R., and Ramdas, A. (2019-), ConfSeq: software for confidence sequences and uniform boundaries, https://github.com/gostevehoward/confseq [Online; accessed 2019-08-08].

@Misc{,
  author = {Steven R. Howard and Aaditya Ramdas},
  title = {{ConfSeq}: software for confidence sequences and uniform boundaries},
  year = {2019--},
  url = "https://github.com/gostevehoward/confseq",
  note = {[Online; accessed <today>]}
}