NEWS
DSS 2.5.0
- Modify the parallel computing part in DML testing.
We now use the 'mcapply' function in 'parallel'
package to implement parallelization. Note that older version of DSS
(<2.4x) used the 'bplapply' function in 'BiocParallel'
package. However, that function somehow has significantly reduced
performance in the new release (>1.25), so we switched to mcapply.
A drawback is that the progress bar cannot be displayed under the
paralelle computing setting.
DSS 2.0.0
- Implemented methods for detecting differentially methylated regions (DMR).
- Modified the algorithm for computing variances with smoothing.
- Add function to detect DML for general experimental design.
- Add function to detect DML for general experimental design.
DSS 1.7.0
- Added functionalities for multiple factor experimental design.
Currently edgeR functions are used for glm fitting and hypothesis testing.
DSS only provide functions for dispersion estimation.
DSS 1.6.0
- Implemented methods for detecting differentially methylated loci (DML).
DSS 1.2.0-1
- Fixed a bug in computing local FDR.
- Change the way to deal with genes with all 0 counts. Now the FDRs for these genes
are assigned as 0.
DSS 0.99-1
- Fixed a bug in newSeqCountSet in dealing with the input experimental designs.
- Fixed a bug in computing local FDR.
- Add options to model the relationship between dispersion and mean expression.
DSS 0.99
NEW FEATURES