git.donarmstrong.com Git - biopieces.git/history

]> git.donarmstrong.com Git - biopieces.git/history - code_perl

2009-05-29	martinahansen	migrated final plotters	tree \| commitdiff
2009-05-29	martinahansen	migrated plot_lendist	tree \| commitdiff
2009-05-29	martinahansen	migrated plot_karyogram	tree \| commitdiff
2009-05-29	martinahansen	migrated plot_histogram	tree \| commitdiff
2009-05-29	martinahansen	migrated plot_chrdist	tree \| commitdiff
2009-05-28	martinahansen	migrated remove_adaptor	tree \| commitdiff
2009-05-28	martinahansen	migrated 4 more	tree \| commitdiff
2009-05-28	martinahansen	migrated tile_seq	tree \| commitdiff
2009-05-28	martinahansen	migrated sort_records	tree \| commitdiff
2009-05-28	martinahansen	migrated sum_vals	tree \| commitdiff
2009-05-28	martinahansen	migrated patscan_seq	tree \| commitdiff
2009-05-27	martinahansen	migrated oligo_freq	tree \| commitdiff
2009-05-27	martinahansen	migrated trans family	tree \| commitdiff
2009-05-27	martinahansen	migrated merge_records	tree \| commitdiff
2009-05-27	martinahansen	migrated max, min, mean, and median _vals	tree \| commitdiff
2009-05-27	martinahansen	migrated match_seq	tree \| commitdiff
2009-05-27	martinahansen	added 3 more	tree \| commitdiff
2009-05-26	martinahansen	migrated 3 biopieces	tree \| commitdiff
2009-05-26	martinahansen	migrated create_vmatch_index	tree \| commitdiff
2009-05-26	martinahansen	migrated create_weight_matrix	tree \| commitdiff
2009-05-26	martinahansen	migrated count_vals	tree \| commitdiff
2009-05-26	martinahansen	migrated count_records	tree \| commitdiff
2009-05-26	martinahansen	migrated and fixed calc_fixedstep	tree \| commitdiff
2009-05-25	martinahansen	migrated calc_bit_scores	tree \| commitdiff
2009-05-25	martinahansen	migrated blat_seq	tree \| commitdiff
2009-05-24	martinahansen	migrated assemble_tag_contigs	tree \| commitdiff
2009-05-24	martinahansen	migrated split biopieces	tree \| commitdiff
2009-05-24	martinahansen	migrated random_records	tree \| commitdiff
2009-05-24	martinahansen	magrated analyze biopieces	tree \| commitdiff
2009-05-24	martinahansen	migrated write_align	tree \| commitdiff
2009-05-24	martinahansen	migrated align_seq	tree \| commitdiff
2009-05-24	martinahansen	migrated add_ident	tree \| commitdiff
2009-05-24	martinahansen	migrated complement_seq and reverse_seq	tree \| commitdiff
2009-05-23	martinahansen	migrated extract_seq	tree \| commitdiff
2009-05-23	martinahansen	rewrite begin	tree \| commitdiff
2009-05-13	martinahansen	moved all binaries and created symlinks instead	tree \| commitdiff
2009-05-12	martinahansen	split Biopieces.pm into BioRun.pm and Biopieces.pm	tree \| commitdiff
2009-05-12	martinahansen	changed wiki renderer	tree \| commitdiff
2008-12-17	martinahansen	fixed BED BUG	tree \| commitdiff
2008-12-11	martinahansen	lots of PSL related changes	tree \| commitdiff
2008-12-11	martinahansen	added exon capabilities to calc_fixedstep	tree \| commitdiff
2008-12-11	martinahansen	calc_fixedstep reverted to perl	tree \| commitdiff
2008-12-11	martinahansen	fixed carriage return bug in read_ucsc_config	tree \| commitdiff
2008-12-09	martinahansen	added splice to get_genome_seq	tree \| commitdiff
2008-12-09	martinahansen	fixed bug in remove_ucsc_tracks	tree \| commitdiff
2008-12-08	martinahansen	minor fixes	tree \| commitdiff
2008-12-08	martinahansen	added --check to a number of Biopieces	tree \| commitdiff
2008-12-08	martinahansen	reverting to BED lists	tree \| commitdiff
2008-12-08	martinahansen	changed BED.pm from list to hash	tree \| commitdiff
2008-12-08	martinahansen	made check_bed optional	tree \| commitdiff
2008-12-05	martinahansen	fixed CHR_BEG=0 bug	tree \| commitdiff
2008-12-05	martinahansen	added bed2tag_contigs as backend to assemble_tag_contigs	tree \| commitdiff
2008-12-05	martinahansen	added bed2fixedstep.c as backend to calc_fixedstep	tree \| commitdiff
2008-12-04	martinahansen	added python code	tree \| commitdiff
2008-11-27	martinahansen	added c power to calc_fixedstep	tree \| commitdiff
2008-11-24	martinahansen	fixed bugs in calc_fixedstep	tree \| commitdiff
2008-11-24	martinahansen	fixed bugs in assemble_tag_contigs	tree \| commitdiff
2008-11-24	martinahansen	major code upgrade 1	tree \| commitdiff
2008-11-21	martinahansen	fixed bug in compute	tree \| commitdiff
2008-11-18	martinahansen	clean up	tree \| commitdiff
2008-11-13	martinahansen	added -c switch to write_bed	tree \| commitdiff
2008-11-11	martinahansen	added ucscMakeTracks -b run to remove_ucsc_tracks	tree \| commitdiff
2008-11-11	martinahansen	finished remove_ucsc_tracks	tree \| commitdiff
2008-11-11	martinahansen	fix date and time in ucsc config	tree \| commitdiff
2008-11-11	martinahansen	added remove_ucsc_tracks	tree \| commitdiff
2008-11-11	martinahansen	added -t to remove_mysql_tables	tree \| commitdiff
2008-11-11	martinahansen	swapped bedSort with bed_sort	tree \| commitdiff
2008-11-11	martinahansen	added mysql related Biopieces	tree \| commitdiff
2008-11-07	martinahansen	finished assemble_tag_contigs	tree \| commitdiff
2008-11-03	martinahansen	rewrote grab to get speed	tree \| commitdiff
2008-10-28	martinahansen	fixed compute	tree \| commitdiff
2008-10-28	martinahansen	fixed bug in compute and analyze_seq	tree \| commitdiff
2008-10-27	martinahansen	changed delimiter in REC_TYPE SOLID to ;	tree \| commitdiff
2008-10-02	martinahansen	added REC_TYPE to read_solid	tree \| commitdiff
2008-09-29	martinahansen	empty change to Seq.pm	tree \| commitdiff
2008-09-29	martinahansen	tada	tree \| commitdiff
2008-09-25	martinahansen	fixed ugly bug	tree \| commitdiff
2008-09-25	martinahansen	fixed rename bug	tree \| commitdiff
2008-09-24	martinahansen	adding rescan to bipartite_scan	tree \| commitdiff
2008-09-23	martinahansen	fixed STDERR and verbose	tree \| commitdiff
2008-09-23	martinahansen	backup time	tree \| commitdiff
2008-09-17	martinahansen	added SPAN to read_psl	tree \| commitdiff
2008-09-17	martinahansen	fixed tmp dir cleaner in Biopieces.pm	tree \| commitdiff
2008-09-16	martinahansen	added 5prime adaptor feature to remove_adaptor	tree \| commitdiff
2008-09-16	martinahansen	inline::c code for adaptor removal	tree \| commitdiff
2008-09-16	martinahansen	minor updates	tree \| commitdiff
2008-09-08	martinahansen	fixed 0 offset bug in remove_adaptor	tree \| commitdiff
2008-09-03	martinahansen	removed wiggle options from upload_to_ucsc	tree \| commitdiff
2008-09-03	martinahansen	fixed -S and -L for calc_fixedstep biopiece	tree \| commitdiff
2008-09-03	martinahansen	added calc_fixedstep biopiece	tree \| commitdiff
2008-09-01	martinahansen	read_solexa now handles both decimal and octal scores	tree \| commitdiff
2008-08-29	martinahansen	fixed bug in remove_adaptor	tree \| commitdiff
2008-08-29	martinahansen	fixed minor bugs in remove_adaptor	tree \| commitdiff
2008-08-29	martinahansen	added remove_adaptor biopiece	tree \| commitdiff
2008-08-29	martinahansen	fixed UCSC::get_psl_entry	tree \| commitdiff
2008-08-28	martinahansen	fix of \r feature in Fasta::get_entry	tree \| commitdiff
2008-08-28	martinahansen	read_fasta fix for stupid \r	tree \| commitdiff
2008-08-26	martinahansen	fixed bug in table name check	tree \| commitdiff
2008-08-26	martinahansen	added fixedStep format to upload_to_ucsc	tree \| commitdiff
2008-08-25	martinahansen	added --verbose run option for blast_seq	tree \| commitdiff
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