NEWS
ribiosIO 1.1.0 (2026-02-20)
- Initial CRAN submission
- Package prepared for CRAN submission with comprehensive documentation
- Depends on ribiosUtils (on CRAN)
ribiosIO 1.0.43
loadObject allows the obj option to take the value NULL
ribiosIO 1.0.42
- Improve read_gct.c by providing meaningful error messages when file is inconsistent
ribiosIO 1.0.41
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
read_rocheNGS_exprs: skip the header line
ribiosIO 1.0.35
readMatrix added option 'as.matrix'
ribiosIO 1.0.34
- Add parameter to control NA format in
write_gct
ribiosIO 1.0.32
- Start using roxygen2
- Add
writeMatrix and readMatrix for numerical matrix I/O
ribiosIO 1.0.31
writeList renamed to write.tableList
- C-level functions renamed to avoid confusion with R function names
ribiosIO 1.0.30
- Add
writeList function to write a series of tables
ribiosIO 1.0.28
read_gmt_list uses gene-set names as names of the returning list
ribiosIO 1.0.27
write_gmt supports simple lists as input
ribiosIO 1.0.26
read_gct_matrix prints detailed error messages for column mismatches
ribiosIO 1.0.25
- Add function
read_pheno to import pheno data information
ribiosIO 1.0.24
- Bug fix:
read_gmt_list supports gene sets without any genes
ribiosIO 1.0.23
- Bug fixes for
read_exprs_matrix
read_exprs_matrix reads in description of gct files
ribiosIO 1.0.22
write_gct handles 0-row matrix
ribiosIO 1.0.21
read_exprs_matrix handles non-numeric second column
ribiosIO 1.0.20
- Add new function
read_chip to read chip files
ribiosIO 1.0.19
- Add new function
write_gmt_list to export GMT lists
ribiosIO 1.0.18
- Add
read_cls for reading CLS files
ribiosIO 1.0.17
write_gct uses the 'desc' attribute of input matrix if available
ribiosIO 1.0.16
read_exprs_matrix uses more stringent grep to detect GCT files
ribiosIO 1.0.15
- Add
write_gct function to export Matrix in GCT format
read_exprs_matrix does not interpret hashes as comment char
ribiosIO 1.0.14
- read_gct C file: second line less strict, allowing empty cells
ribiosIO 1.0.13
isGctFile is less strict regarding spaces
ribiosIO 1.0.12
- Add
isGctFile function to determine GCT file format compliance
ribiosIO 1.0.11
- Documentation improvements for
read_gmt_list
ribiosIO 1.0.10
- Cleanup src/Makevar: remove hard-coded dependencies
ribiosIO 1.0.9
- Add
read_fasta and write_fasta for FASTA-format sequence files
ribiosIO 1.0.8
- C-function
read_gct supports both file and character string input
- Add
read_gctstr_matrix for parsing GCT format strings
ribiosIO 1.0.7
- Add
loadFile from the ribios package
ribiosIO 1.0.6
- Package cleanup and benchmarking
ribiosIO 1.0.5
- Add man pages for
read_gmt_list and iofile
ribiosIO 1.0.4
- Add
read_gmt_list function to read GMT files
ribiosIO 1.0.3
- Add correct version of
iofile
ribiosIO 1.0.2
read_exprs_matrix supports full table and duplicated row names
ribiosIO 1.0.1
- Add
read_exprs_matrix for importing expression matrix from file
- C routine
read_gct checks second line with arrayMax
ribiosIO 1.0.0
- Initial release: refactor
read_gct from ribiosExpression