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2010-03-02	martinahansen	cleaned up BGB track code	commit \| commitdiff \| tree
2010-03-02	martinahansen	merged BGB::Common.pm to BGB::Track.pm	commit \| commitdiff \| tree
2010-03-02	martinahansen	BGB cleanup of index.cgi	commit \| commitdiff \| tree
2010-03-02	martinahansen	BGB cleanup of hrefs	commit \| commitdiff \| tree
2010-03-01	martinahansen	added center navigation to BGB	commit \| commitdiff \| tree
2010-03-01	martinahansen	added wiggle to BGB	commit \| commitdiff \| tree
2010-03-01	martinahansen	added wiggle to BGB	commit \| commitdiff \| tree
2010-02-11	martinahansen	fixed issue in KISS.pm but more found	commit \| commitdiff \| tree
2010-02-11	martinahansen	added option for database search to blat_seq	commit \| commitdiff \| tree
2010-02-10	martinahansen	fixed feature width issue	commit \| commitdiff \| tree
2010-02-10	martinahansen	added arrows to BGB	commit \| commitdiff \| tree
2010-02-09	martinahansen	added color routine to Draw.pm	commit \| commitdiff \| tree
2010-02-09	martinahansen	moving back to binned index and using JSON for storing	commit \| commitdiff \| tree
2010-02-09	martinahansen	changed kiss score to bit_score instead of eval	commit \| commitdiff \| tree
2010-02-06	martinahansen	added search function to NClist.pm	commit \| commitdiff \| tree
2010-02-06	martinahansen	fixed BGB search function	commit \| commitdiff \| tree
2010-02-06	martinahansen	debugging search function in NClists.pm	commit \| commitdiff \| tree
2010-02-06	martinahansen	added search function to NClist.pm	commit \| commitdiff \| tree
2010-02-06	martinahansen	removed dir check from create_bowtie_index	commit \| commitdiff \| tree
2010-02-06	martinahansen	shifted to NC list in BGB	commit \| commitdiff \| tree
2010-02-06	martinahansen	added uniq_seq	commit \| commitdiff \| tree
2010-02-06	martinahansen	fix of read_kiss code comments	commit \| commitdiff \| tree
2010-02-05	martinahansen	fixed bugs in BGB	commit \| commitdiff \| tree
2010-02-03	martinahansen	added NClist.pm	commit \| commitdiff \| tree
2010-01-31	martinahansen	fixed sequence type guessing in create_blast_index	commit \| commitdiff \| tree
2010-01-29	martinahansen	changed sorting in BGB	commit \| commitdiff \| tree
2010-01-28	martinahansen	repair on plot_karyogram	commit \| commitdiff \| tree
2010-01-28	martinahansen	repair on plot_karyogram	commit \| commitdiff \| tree
2010-01-26	martinahansen	fixed a number of issues - grave bug in complement_seq!	commit \| commitdiff \| tree
2010-01-25	martinahansen	add q_id specificity to assemblo_contigs	commit \| commitdiff \| tree
2010-01-25	martinahansen	added strand specificity fo assemble_contigs	commit \| commitdiff \| tree
2010-01-24	martinahansen	cleanup BGB stuff	commit \| commitdiff \| tree
2010-01-22	martinahansen	fixed URI::Escape on q_id in BGB	commit \| commitdiff \| tree
2010-01-21	martinahansen	added plot_lines	commit \| commitdiff \| tree
2010-01-19	martinahansen	changed uclust engine from CD-hit to uclust	commit \| commitdiff \| tree
2010-01-19	martinahansen	fixed strand bug in SAM.pm	commit \| commitdiff \| tree
2010-01-13	martinahansen	changed engine in cluster_seq to uclust	commit \| commitdiff \| tree
2010-01-12	martinahansen	added cluster_seq	commit \| commitdiff \| tree
2010-01-05	martinahansen	cleanup of BGB	commit \| commitdiff \| tree
2009-12-25	martinahansen	added BGB_delete_track	commit \| commitdiff \| tree
2009-12-17	martinahansen	added BGB_read_track	commit \| commitdiff \| tree
2009-12-17	martinahansen	simplified BGB index scheme	commit \| commitdiff \| tree
2009-12-16	martinahansen	todo fixes	commit \| commitdiff \| tree
2009-12-16	martinahansen	fixed bug in grab	commit \| commitdiff \| tree
2009-12-15	martinahansen	BGB cleanup	commit \| commitdiff \| tree
2009-12-15	martinahansen	fixed bug in list_biopieces	commit \| commitdiff \| tree
2009-12-15	martinahansen	BGB cleanup	commit \| commitdiff \| tree
2009-12-15	martinahansen	added permalink to BGB	commit \| commitdiff \| tree
2009-12-15	martinahansen	fixed BGB nav_start bug	commit \| commitdiff \| tree
2009-12-15	martinahansen	added find_genes	commit \| commitdiff \| tree
2009-12-15	martinahansen	added track label to search function in BGB	commit \| commitdiff \| tree
2009-12-15	martinahansen	fixed upload pipe	commit \| commitdiff \| tree
2009-12-15	martinahansen	fixex index.cgi	commit \| commitdiff \| tree
2009-12-15	martinahansen	this is the index we want from xeon	commit \| commitdiff \| tree
2009-12-14	martinahansen	added BGB_intersect	commit \| commitdiff \| tree
2009-12-14	martinahansen	renamed upload_to_bbrowser to BGB_upload	commit \| commitdiff \| tree
2009-12-14	martinahansen	added BGB_list	commit \| commitdiff \| tree
2009-12-14	martinahansen	renaming BBrowser to BGB	commit \| commitdiff \| tree
2009-12-14	martinahansen	replacing Bbrowser with BGB	commit \| commitdiff \| tree
2009-12-14	martinahansen	added kiss_intersect	commit \| commitdiff \| tree
2009-12-11	martinahansen	fixed bug in translate_seq	commit \| commitdiff \| tree
2009-12-10	martinahansen	fixed bug in uploader	commit \| commitdiff \| tree
2009-12-10	martinahansen	fixed bug in upload_to_bbrowser	commit \| commitdiff \| tree
2009-12-08	martinahansen	added security to browser	commit \| commitdiff \| tree
2009-12-08	martinahansen	added read_ace	commit \| commitdiff \| tree
2009-12-08	martinahansen	added login to browser	commit \| commitdiff \| tree
2009-12-04	martinahansen	added file_md5 routine to Filesys.pm	commit \| commitdiff \| tree
2009-12-03	martinahansen	added space between liniea track elements	commit \| commitdiff \| tree
2009-12-03	martinahansen	fixed inline PNG in Bbrowser	commit \| commitdiff \| tree
2009-12-02	martinahansen	implemented search function in bbrowser	commit \| commitdiff \| tree
2009-12-01	martinahansen	added DB.pm	commit \| commitdiff \| tree
2009-12-01	martinahansen	added DB.pm	commit \| commitdiff \| tree
2009-12-01	martinahansen	set bbrowser and GFF to 0-base	commit \| commitdiff \| tree
2009-12-01	martinahansen	fixed IO rename in write_kiss	commit \| commitdiff \| tree
2009-12-01	martinahansen	rename mistake fix2	commit \| commitdiff \| tree
2009-12-01	martinahansen	rename mistake fix1	commit \| commitdiff \| tree
2009-12-01	martinahansen	renamed KISS browser to Biopiece browser	commit \| commitdiff \| tree
2009-11-27	martinahansen	added dna export to browser	commit \| commitdiff \| tree
2009-11-27	martinahansen	changes to browser	commit \| commitdiff \| tree
2009-11-26	martinahansen	cleaned BBrowser::Tracks.pm	commit \| commitdiff \| tree
2009-11-26	martinahansen	Cleaned BBrowser::Draw	commit \| commitdiff \| tree
2009-11-26	martinahansen	cleaned KISS.pm	commit \| commitdiff \| tree
2009-11-26	martinahansen	finished cleaning index.cgi	commit \| commitdiff \| tree
2009-11-26	martinahansen	removed KISS directory	commit \| commitdiff \| tree
2009-11-26	martinahansen	www relayout	commit \| commitdiff \| tree
2009-11-26	martinahansen	www relayout	commit \| commitdiff \| tree
2009-11-25	martinahansen	more KISS	commit \| commitdiff \| tree
2009-11-25	martinahansen	fixed color palette in KISS	commit \| commitdiff \| tree
2009-11-25	martinahansen	fixed KISS browser genome selection	commit \| commitdiff \| tree
2009-11-24	martinahansen	fixed comma bug	commit \| commitdiff \| tree
2009-11-24	martinahansen	kiss_sort()	commit \| commitdiff \| tree
2009-11-24	martinahansen	fixed KISS	commit \| commitdiff \| tree
2009-11-24	martinahansen	rewrote upload_to_KISS	commit \| commitdiff \| tree
2009-11-24	martinahansen	major work on KISS browser completed	commit \| commitdiff \| tree
2009-11-16	martinahansen	hacked read_soft to deal with soft_files wo platform...	commit \| commitdiff \| tree
2009-11-16	martinahansen	misc changes	commit \| commitdiff \| tree
2009-11-13	martinahansen	write_kiss now do blast output	commit \| commitdiff \| tree
2009-11-09	martinahansen	added analyze_snp	commit \| commitdiff \| tree
2009-11-09	martinahansen	fixed SAM bug	commit \| commitdiff \| tree
2009-11-09	martinahansen	improved SAM parser	commit \| commitdiff \| tree
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