Download. Changes: several bug fixes (relative filenames, datasets with data missing for some of the chromosomes).
Download. Changes: added support for BAM files, scaling by the dataset size in the smoothed tag density, a new method for calculating smoothed estimates for enrichment ratios; made R 2.12 compatible.
Download. Changes: added support for Eland's multi format, full arachne format, helicos tab-delimited alignment output, fixed maq readin, build library requirements.
Download. Changes: fixed a step filtering problem with get.mser.interpolation (thanks to Joe Luquette), fixed remove.tag.anomalies flag in get.binding.characteristics which wasn't being checked.
Download. Changes: Changed header files to accommodate newer GCC versions; Fixed a big in write.broadpeak.info.
Download. Changes: Added support for the extended Eland format (extended=T option for read.eland.tags).
Download. Changes: Added support for bowtie output, basic routines for broader regions of enrichment.
Download. Changes: fixed topN threshold is used together with background anomaly subtraction.
Download. Changes: added ability to read in MAQ alignments, skip binding.characteristics calculations for select.informative.tag call, improved effective dataset size estimation.
Download. Change: capped reported FDR estimates for peaks taller than any control peaks at the lowest FDR reached by the dataset
Initial package release. Download Unix version.