Changes in version 1.17 MsCoreUtils 1.17.3 - Use R_Calloc and R_Free instead of Calloc and Free in src/lowerConvexHull.c, respectively, to reflect changes in the R API and fullfil STRICT_R_HEADERS check. MsCoreUtils 1.17.2 - Fix typo in normalisation methods description. MsCoreUtils 1.17.1 - Fix common_path() to not return also the file name if the input parameter contains only identical character strings. Changes in version 1.15 MsCoreUtils 1.15.7 - Add common_path() function. MsCoreUtils 1.15.6 - Bump version to force new package build on Bioconductor servers. MsCoreUtils 1.15.5 - Add function force_sorted() to adjust a numeric vector to ensure increasing/sorted values. MsCoreUtils 1.15.4 - Fix partial argument match (see issue #125). MsCoreUtils 1.15.4 - Fix documentation of ndotproduct. MsCoreUtils 1.15.3 - Add function breaks_ppm to create a sequence of numbers with increasing difference between elements (defined by parameter ppm). MsCoreUtils 1.15.2 - Porting baseline estimation function (see issue 119). MsCoreUtils 1.15.1 - Remove impute_mle2() since norm2 has been removed from CRAN (see issue 117). MsCoreUtils 1.15.0 - New Bioc devel version Changes in version 1.13 MsCoreUtils 1.13.1 - Add functions entropy and nentropy. Changes in version 1.11 MsCoreUtils 1.11.6 - Fix bug in impute_MinDet(MARGIN = 1) and add unit test. - Check that package is available and namespace is loaded adding stopifnot() when calling requireNamespace(). MsCoreUtils 1.11.5 - Add function maxi to determine the maximal intensity value. This function returns NA_real_ instead of -Inf if all values are missing or if the length of the input parameter is 0. MsCoreUtils 1.11.4 - Check if parameter y is increasingly ordered in bin: issue #108. MsCoreUtils 1.11.3 - Add function sumi to sum intensity values with correct NA handling. MsCoreUtils 1.11.2 - Reimplement between in C (see issue #105). - Use symbols to call registered C methods for faster lookup (see PR #106 and Writing R extensions: Converting a package to use registration). - Documentation improvement: explicitly mention impute_mle2() in the MLE imputation paragraph. MsCoreUtils 1.11.1 - Add a MARGIN argument to (relevant) imputation functions to support (and make it explicit) along which dimensions (row or columns) imputation is performed. - New impute_mle2() function that uses norm2 (see issue #100). MsCoreUtils 1.11.0 - New Bioconductor 3.17 (devel) release Changes in version 1.10 MsCoreUtils 1.10.0 - New Bioconductor 3.16 (stable) release Changes in version 1.9 MsCoreUtils 1.9.2 - feat: imputation is compatible with HDF5Matrix objects - feat: normalization is compatible with HDF5Matrix objects - feat: matrix aggregation is compatible with HDF5Matrix objects - fix+feat: aggregate_by_matrix now correctly handles missing data and implements 'na.rm' - Fix rla/rowRla man page. MsCoreUtils 1.9.1 - Random forest imputation (using missForest) is now available (`method = "RF") MsCoreUtils 1.9.0 - New Bioc devel version Changes in version 1.7 MsCoreUtils 1.7.5 - Function bin gains parameter returnMids to choose whether or not bin mid-points should be returned in the result list. MsCoreUtils 1.7.4 - Fix ppm to always return a positive value (issue #94). MsCoreUtils 1.7.3 - Add citation. MsCoreUtils 1.7.2 - Use Matrix::colSums() by default to handle sparce 'Matrix' and 'matrix' adjacency matrices. MsCoreUtils 1.7.1 - New aggregate_by_matrix() that uses an adjacency matrix to aggregate quantitative features. - Set colnames to the outputs of aggregate_by_matrix() and aggregate_by_vector() to make sure that these are always set and not reply on the underlying function. MsCoreUtils 1.7.0 - New Bioc devel version Changes in version 1.5 Changes in 1.5.1 - Add which.first and which.last. Changes in 1.5.0 - New Bioc devel version Changes in version 1.3 Changes in 1.3.3 - Add join_gnps and gnps to allow calculation of GNPS spectra similarity scores. Changes in 1.3.2 - Add rt2numeric(), rt2character() and formatRt(). - New impute_fun() function for user-provide imputation function. Changes in 1.3.1 - Add Josep Badia Aparicio as a contributor Changes in 1.3.0 - New Bioc devel version Changes in version 1.1 Changes in 1.1.7 - Rewrite c("left", "right", "inner", "outer") join in C <2020-10-06 Tue>. Changes in 1.1.6 - Rewrite closest in C <2020-09-24 Thu>. - Fix #65 and #66. Changes in 1.1.5 - Add ... to functions to join and compare peaks; see also #131. Changes in 1.1.4 - Change references to Feature to QFeatures <2020-07-14 Tue> - Ensure closest accept just argument tolerance of length 1 or length(x); see also #61, PR #62 <2020-08-07 Thu>. - The tolerance argument in closest should now be of length 1 or of length(x) (was length(table) before) <2020-08-20 Thu>. Changes in 1.1.3 - For an empty table closest and common return a vector of length x with NA or FALSE, respectively (instead of 1 and TRUE). Fixes #55 <2020-06-18 Thu>. - closest and common ignore NA in table <2020-06-19 Fri>. - Fix rbindFill for single data.frame or DataFrame as input <2020-06-23 Tue>. Changes in 1.1.2 - New colCounts() aggregation function <2020-05-27 Wed>. Changes in 1.1.1 - Add some popular distance/similarity metrices: ndotproduct neuclidean navdist nspectraangle; see also PR #33. - Add deprecation note to dotproduct <2020-05-22 Fri>. Changes in 1.1.0 - Bioconductor devel version (Bioc 3.12) Changes in version 1.0 Changes in 1.0.0. - Bioconductor release version (Bioc 3.11) Changes in version 0.99 MsCoreUtils 0.99.3 - Trigger build. MsCoreUtils 0.99.2 - Provide more comprehensive description. - Add vignette. MsCoreUtils 0.99.1 - Additional functions, and using Author@R to specify (unique) RforMassSpectrometry Package Maintainer. MsCoreUtils 0.99.0 - First release of MsCoreUtils with core function to get extreme values, grouping/matching, noise/smoothing, similarity measurements, various helper function, and function to process (impute and normalise) quantitative features.