IGD Status

This is used as a status report.

Jul 19 '18 14:07 jf2016GH

7/20: Initial benchmarks for roadmap and ucsc data sources are established. The ucsc_igd is created from data source ucsc_sorted in /sfs/qumulo/qproject/shefflab/iGD. The giggle index folder for ucsc is about 640GB in size, the compressed file ucsc_index.tgz is ~120GB and located in /sfs/qumulo/qproject/shefflab/iGD. Install giggle to use it.

Jul 20 '18 19:07 jf2016GH

7/23: Large-scale data sources roadmap and ucsc for both iGD and giggle are available at: .../www/igd.

Jul 24 '18 15:07 jf2016GH

7/24-7/25: Add dynamic search functionality. Find large data sources with signal values for testing dynamic search.

Jul 25 '18 15:07 jf2016GH

7/26: iGD is ready for external test.

Jul 27 '18 03:07 jf2016GH

7/27: Add scripts for figure

Jul 27 '18 20:07 jf2016GH

8/2: Database for testing dynamic search is added to www/igd: tsbf_igd.

Aug 02 '18 13:08 jf2016GH

8/6: processing Cistrome data; double check the result difference with giggle

Aug 07 '18 01:08 jf2016GH

Finished Figure 1. Try to make iGD faster.

Aug 08 '18 12:08 jf2016GH

Found a new solution to the general interval search problem--it should be much better than the standard B+ tree algorithm. Will be implemented.

Aug 23 '18 14:08 jf2016GH