NEWS
regioneR 1.18.0
NEW FEATURES
- Expanded toGRanges support. It is now possible to transform coverage
objects (i.e. toGRanges(coverage(A))) into GRanges. It also supports
".assoc" files produced by PLINK.
- overlapPermTest now supports multiple region sets in B and will perform
a multi- permutation test against each one much faster than testing them
independently.
BUG FIXES
regioneR 1.13.2
BUG FIXES
- createRandomRegions ignored the non.overlapping argument. It does work now.
regioneR 1.13.1
NEW FEATURES
- Revamped toGRanges now accepts genome region descriptions as used by
UCSC and IGV ("chr9:23000-25000"). It also may take a genome parameter
and set the genome information of the GRanges accordingly.
regioneR 1.9.2
NEW FEATURES
- Simplified the interface of toGRanges for simpler use when manually
creating GRanges. Now toGRanges("chr1", 10, 20) is valid.
BUG FIXES
regioneR 1.1.8
NEW FEATURES
- Added new functionality to permTest to use multiple evaluation functions
with a single randomization procedure. This gives a significant speedup
when comparing a single region set with multiple other features
- Created a new function createFunctionsList() that given a function
and a list of values, creates a list of curried functions
(e.g with one parameter preassigned to each of the given values)
PERFORMANCE IMPROVEMENTS
- Complete rewrite of randomizeRegions() resulting in a 10 to 100 fold speedup
BUG FIXES