NEWS.md

In ribiosIO: Input/Output Utilities of the 'ribios' Suite

ribiosIO 1.1.0

• Initial CRAN submission
• Package prepared for CRAN submission with comprehensive documentation
• Depends on ribiosUtils (on CRAN)

ribiosIO 1.0.43 (2016-06-21)

• loadObject allows the obj option to take the value NULL

ribiosIO 1.0.42 (2016-01-25)

• Improve read_gct.c by providing meaningful error messages when file is inconsistent

ribiosIO 1.0.41 (2016-12-20)

• read_rocheNGS_exprs renamed to read_biokit_exprs
• read_biokit_exprs updated for new Biokit pipeline output files
• Add read_trimmed_lines
• Add loadObject

ribiosIO 1.0.36 (2015-10-12)

• read_rocheNGS_exprs: skip the header line

ribiosIO 1.0.35 (2015-06-10)

• readMatrix added option 'as.matrix'

ribiosIO 1.0.34 (2015-03-11)

• Add parameter to control NA format in write_gct

ribiosIO 1.0.32 (2014-10-31)

• Start using roxygen2
• Add writeMatrix and readMatrix for numerical matrix I/O

ribiosIO 1.0.31 (2014-05-08)

• writeList renamed to write.tableList
• C-level functions renamed to avoid confusion with R function names

ribiosIO 1.0.30 (2014-05-07)

• Add writeList function to write a series of tables

ribiosIO 1.0.28 (2013-12-02)

• read_gmt_list uses gene-set names as names of the returning list

ribiosIO 1.0.27 (2013-11-14)

• write_gmt supports simple lists as input

ribiosIO 1.0.26 (2013-05-31)

• read_gct_matrix prints detailed error messages for column mismatches

ribiosIO 1.0.25 (2013-02-28)

• Add function read_pheno to import pheno data information

ribiosIO 1.0.24 (2013-02-26)

• Bug fix: read_gmt_list supports gene sets without any genes

ribiosIO 1.0.23 (2013-02-22)

• Bug fixes for read_exprs_matrix
• read_exprs_matrix reads in description of gct files

ribiosIO 1.0.22 (2013-02-21)

• write_gct handles 0-row matrix

ribiosIO 1.0.21 (2013-02-20)

• read_exprs_matrix handles non-numeric second column

ribiosIO 1.0.20 (2012-11-19)

• Add new function read_chip to read chip files

ribiosIO 1.0.19 (2012-11-01)

• Add new function write_gmt_list to export GMT lists

ribiosIO 1.0.18 (2012-10-24)

• Add read_cls for reading CLS files

ribiosIO 1.0.17 (2012-10-22)

• write_gct uses the 'desc' attribute of input matrix if available

ribiosIO 1.0.16 (2012-07-12)

• read_exprs_matrix uses more stringent grep to detect GCT files

ribiosIO 1.0.15 (2012-07-10)

• Add write_gct function to export Matrix in GCT format
• read_exprs_matrix does not interpret hashes as comment char

ribiosIO 1.0.14 (2012-07-04)

• read_gct C file: second line less strict, allowing empty cells

ribiosIO 1.0.13 (2012-06-21)

• isGctFile is less strict regarding spaces

ribiosIO 1.0.12 (2012-06-12)

• Add isGctFile function to determine GCT file format compliance

ribiosIO 1.0.11 (2012-06-07)

• Documentation improvements for read_gmt_list

ribiosIO 1.0.10 (2012-05-07)

• Cleanup src/Makevar: remove hard-coded dependencies

ribiosIO 1.0.9 (2012-04-10)

• Add read_fasta and write_fasta for FASTA-format sequence files

ribiosIO 1.0.8 (2012-02-22)

• C-function read_gct supports both file and character string input
• Add read_gctstr_matrix for parsing GCT format strings

ribiosIO 1.0.7 (2012-01-09)

• Add loadFile from the ribios package

ribiosIO 1.0.6 (2011-12-08)

• Package cleanup and benchmarking

ribiosIO 1.0.5 (2011-12-08)

• Add man pages for read_gmt_list and iofile

ribiosIO 1.0.4 (2011-12-07)

• Add read_gmt_list function to read GMT files

ribiosIO 1.0.3 (2011-11-18)

• Add correct version of iofile

ribiosIO 1.0.2 (2011-11-17)

• read_exprs_matrix supports full table and duplicated row names

ribiosIO 1.0.1 (2011-11-16)

• Add read_exprs_matrix for importing expression matrix from file
• C routine read_gct checks second line with arrayMax

ribiosIO 1.0.0 (2011-11-15)

• Initial release: refactor read_gct from ribiosExpression

ribiosIO documentation built on Feb. 20, 2026, 5:09 p.m.