Downloads¶
Lastest version¶
You can download the latest version of metilene here. Download the user guide here and the publication is here.
All versions¶
- New option added to select Benjamini-Hochberg (FDR) as method for multiple testing correction of p-values. New option added to set maximum segment length in case of memory issues. Assignment of samples to groups is now done via prefix instead of substring matches and incorporation of an additional check to prevent samples to be assigned to both groups. Alternative random number generator PCG (http://www.pcg-random.org) instead of stdlib's rand() added to provide reproducible results across different platforms that can be enabled with the additional compiler flag "-DPCGRNG". Precision of p-values and adjusted p-values in output was increased from 2 to 5.
- Calculation of mean difference per DMR in DMC modus. Concordant with other modi it is group1 mean - group2 mean.
- (including input/output wrappers)
- Versioning updated
- Predefined cutoff for -X and -Y options corrected (set to 0.8 as specified in the manual)
- Seed for random generator initialized with a specific number
- (including input/output wrappers)
- Official release
- (including input/output wrappers)
- Output mean methylation of segments
- Added input/output wrappers to the package
- Manual updated
- Estimation of missing values improved
- Manual updated
- Output for single-CpG and region tests match now with the main mode
- Several bugs for single-CpG and region tests.
- (Original version)
Supplementary Note¶
Simulated DMRs and input files¶
Simulated DMRs and input files with simulated methylation rates for all tested tools are available here (2.1GB) .
Scripts to simulate DMRs¶
The scripts to simulate DMRs from scratch are provided in a separate file (9.7MB) .