Changelog

Source: NEWS.md

tgstat 2.4.0

• Added tgs_chi2(): vectorized chi-squared test for 2x2 contingency tables with optional Yates’ continuity correction. Supports both dense and sparse (dgCMatrix) matrix input. Useful for differential gene expression analysis. C++ backend with fork-based parallelization for large matrices and erfc(sqrt(x/2)) optimization for p-value computation.

tgstat 2.3.322026-03-20

• Replaced non-API C entry point Rf_findVar with R_getVar for R 4.6.0 compatibility.
• Added .claude to .Rbuildignore.

tgstat 2.3.30

• FIFO temp directory is now configurable via options(tgs_tmpdir = "/path") or the TMPDIR environment variable, instead of being hardcoded to /tmp. Fixes permission errors on systems where /tmp is restricted (#17).
• Added a child-process liveness check in wait_for_kid()/wait_for_kids() to prevent potential hangs when child processes terminate unexpectedly without being reaped (#18).
• Added comprehensive tests for tgs_cor_knn and temp directory configuration.

tgstat 2.3.292025-11-12

• Removed non-API calls to R: Rf_GetOption.

tgstat 2.3.282024-09-23

• Fixed noRemap additional issue by adding Rf_ prefix in the c++ code.
• Removed non-API calls to R: R_curErrorBuf, SET_TYPEOF in the c++ code.

tgstat 2.3.272024-02-15

• Fixed URL of the package in the DESCRIPTION file.

tgstat 2.3.26

• Guess tgs.use_blas from environment if not set.

tgstat 2.3.252023-11-29

• Fixed clang warnings.

tgstat 2.3.242023-06-27

• Fixed compilation errors on clang17.

tgstat 2.3.23

• Added missing header.

tgstat 2.3.222023-01-24

• Fixed compilation errors on clang16.

tgstat 2.3.20

• added missing include in order to compile with gcc 13

tgstat 2.3.192022-11-24

• Fixed rchk warning with the patch generously provided by Tomas Kalibera (thanks!).
• Fixed a compilation warning on M1 macs.

tgstat 2.3.182022-09-29

• Fixed a compilation warning on M1 macs.

tgstat 2.3.172022-04-14

• Fix compilation issues with R 4.2.0
• Use roxygen2 and markdown for documentation

tgstat 2.3.162020-09-02

• Fix compilation issues on Debian.

tgstat 2.3.15

• Fix compilation errors on 32-bit platforms.
• Fix compilation and run-time issues on Solaris.

tgstat 2.3.142020-08-19

• Stop using non-portable bswap_32 and bswap_64.

tgstat 2.3.13

• tgs_matrix_tapply: set correctly the column names of the resulted matrix.
• tgs_cor_knn: fix alignment issues on some platforms.

tgstat 2.3.12

• Added authors with DOI to package description.

tgstat 2.3.11

• Fixed compilation issues on some platforms.

tgstat 2.3.102020-07-13

• Bug fix in tgs_matrix_tapply: “fn_name is not a string” error when ‘fun’ is a function defined inline.
• Bug fix in tgs_matrix_tapply: occasional “stack imbalance” warning.