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

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

2010-10-15	martinahansen	trouble shooting buffering problem	tree \| commitdiff
2010-10-14	martinahansen	ported analyze_seq to ruby	tree \| commitdiff
2010-10-13	martinahansen	fixed scores in bwa_seq	tree \| commitdiff
2010-10-13	martinahansen	changed bowtie_seq to use phred64	tree \| commitdiff
2010-10-13	martinahansen	polished read_454 and added tests	tree \| commitdiff
2010-10-13	martinahansen	polished plot_scores	tree \| commitdiff
2010-10-12	martinahansen	slight bug fix of write_fastq	tree \| commitdiff
2010-10-12	martinahansen	upgraded scores_to_dec	tree \| commitdiff
2010-10-12	martinahansen	upgraded mask_seq	tree \| commitdiff
2010-10-12	martinahansen	added solexa switch to read_fastq	tree \| commitdiff
2010-10-12	martinahansen	upgraded read_fastq and added tests	tree \| commitdiff
2010-10-11	martinahansen	upgraded find_genes	tree \| commitdiff
2010-09-23	martinahansen	cleanup of uclust_seq	tree \| commitdiff
2010-09-22	martinahansen	polishing on uclust_seq	tree \| commitdiff
2010-09-21	martinahansen	added uclust_seq Biopiece - Work in progress!	tree \| commitdiff
2010-09-20	martinahansen	fixed typo in text in digest_seq	tree \| commitdiff
2010-09-20	martinahansen	fixes and test for digest_seq	tree \| commitdiff
2010-09-20	martinahansen	added digest_seq Biopiece	tree \| commitdiff
2010-09-16	martinahansen	added pcr_seq Biopiece	tree \| commitdiff
2010-09-13	martinahansen	added bin_vals biopiece and tests	tree \| commitdiff
2010-09-09	martinahansen	ported length_seq to ruby	tree \| commitdiff
2010-09-09	martinahansen	fixing length_seq	tree \| commitdiff
2010-09-09	martinahansen	slight fix of trailing newline in progress_meter	tree \| commitdiff
2010-09-09	martinahansen	slight fix of trailing newline in progress_meter	tree \| commitdiff
2010-09-09	martinahansen	slight fix of trailing newline in progress_meter	tree \| commitdiff
2010-09-09	martinahansen	slight fix of printf in progress_meter	tree \| commitdiff
2010-09-09	martinahansen	added progress_meter biopiece	tree \| commitdiff
2010-09-02	martinahansen	added scores_to_dec biopiece, wiki, and tests	tree \| commitdiff
2010-09-01	martinahansen	added mask_seq biopiece	tree \| commitdiff
2010-09-01	martinahansen	replaced option keys from strings to symbols in ruby...	tree \| commitdiff
2010-08-20	martinahansen	shifted ruby biopiece records to use symbols instead...	tree \| commitdiff
2010-08-17	martinahansen	replacing read_fasta with ruby version	tree \| commitdiff
2010-08-17	martinahansen	replacing read_fasta with ruby version	tree \| commitdiff
2010-08-13	martinahansen	fixed type bug in ruby code	tree \| commitdiff
2010-08-09	martinahansen	added lisence to ruby code	tree \| commitdiff
2010-08-06	martinahansen	added swapcase_seq written in RUBY	tree \| commitdiff
2010-08-06	martinahansen	dropping swapcase_seq tobereplaced	tree \| commitdiff
2010-08-06	martinahansen	added -o option and tests to analyze_vals	tree \| commitdiff
2010-08-03	martinahansen	corrected slight bug in grab	tree \| commitdiff
2010-06-30	martinahansen	added trim_seq	tree \| commitdiff
2010-06-29	martinahansen	added biopieces mean_scores	tree \| commitdiff
2010-06-28	martinahansen	added usearch_seq biopiece	tree \| commitdiff
2010-06-17	martinahansen	added list switch to *_vals biopieces	tree \| commitdiff
2010-06-17	martinahansen	added list switch to mean_vals	tree \| commitdiff
2010-06-17	martinahansen	added fixedstep biopieces	tree \| commitdiff
2010-06-16	martinahansen	schrubbing UCSC.pm code	tree \| commitdiff
2010-05-25	martinahansen	added plot_scores fix	tree \| commitdiff
2010-05-25	martinahansen	added plot_scores	tree \| commitdiff
2010-05-20	martinahansen	fixed missing SEQ_LEN in read_454	tree \| commitdiff
2010-05-20	martinahansen	added solexa_str_mean to read_454	tree \| commitdiff
2010-05-19	martinahansen	added read_454 and write_454 (and ruby stuff)	tree \| commitdiff
2010-05-18	martinahansen	extract seq now also extract SCORES if present	tree \| commitdiff
2010-05-18	martinahansen	fixed harmless bug in remove_adaptor	tree \| commitdiff
2010-05-11	martinahansen	fixed bug in write_fixedstep	tree \| commitdiff
2010-04-20	martinahansen	added trimming of scores to remove_adaptor	tree \| commitdiff
2010-03-17	martinahansen	removed indexing from BGB_upload	tree \| commitdiff
2010-03-15	martinahansen	added N block switch to blat_seq	tree \| commitdiff
2010-03-08	martinahansen	tweaks to blat_seq to avoid introns in fastMap - still...	tree \| commitdiff
2010-03-03	martinahansen	added find_gaps	tree \| commitdiff
2010-03-02	martinahansen	merged BGB::Common.pm to BGB::Track.pm	tree \| commitdiff
2010-03-01	martinahansen	added wiggle to BGB	tree \| commitdiff
2010-02-11	martinahansen	added option for database search to blat_seq	tree \| commitdiff
2010-02-09	martinahansen	moving back to binned index and using JSON for storing	tree \| commitdiff
2010-02-06	martinahansen	removed dir check from create_bowtie_index	tree \| commitdiff
2010-02-06	martinahansen	shifted to NC list in BGB	tree \| commitdiff
2010-02-06	martinahansen	added uniq_seq	tree \| commitdiff
2010-02-06	martinahansen	fix of read_kiss code comments	tree \| commitdiff
2010-01-31	martinahansen	fixed sequence type guessing in create_blast_index	tree \| commitdiff
2010-01-26	martinahansen	fixed a number of issues - grave bug in complement_seq!	tree \| commitdiff
2010-01-25	martinahansen	add q_id specificity to assemblo_contigs	tree \| commitdiff
2010-01-25	martinahansen	added strand specificity fo assemble_contigs	tree \| commitdiff
2010-01-24	martinahansen	cleanup BGB stuff	tree \| commitdiff
2010-01-21	martinahansen	added plot_lines	tree \| commitdiff
2010-01-19	martinahansen	changed uclust engine from CD-hit to uclust	tree \| commitdiff
2010-01-13	martinahansen	changed engine in cluster_seq to uclust	tree \| commitdiff
2010-01-12	martinahansen	added cluster_seq	tree \| commitdiff
2010-01-05	martinahansen	cleanup of BGB	tree \| commitdiff
2009-12-25	martinahansen	added BGB_delete_track	tree \| commitdiff
2009-12-17	martinahansen	added BGB_read_track	tree \| commitdiff
2009-12-16	martinahansen	fixed bug in grab	tree \| commitdiff
2009-12-15	martinahansen	fixed bug in list_biopieces	tree \| commitdiff
2009-12-15	martinahansen	added find_genes	tree \| commitdiff
2009-12-15	martinahansen	fixed upload pipe	tree \| commitdiff
2009-12-14	martinahansen	added BGB_intersect	tree \| commitdiff
2009-12-14	martinahansen	renamed upload_to_bbrowser to BGB_upload	tree \| commitdiff
2009-12-14	martinahansen	added BGB_list	tree \| commitdiff
2009-12-11	martinahansen	fixed bug in translate_seq	tree \| commitdiff
2009-12-10	martinahansen	fixed bug in uploader	tree \| commitdiff
2009-12-10	martinahansen	fixed bug in upload_to_bbrowser	tree \| commitdiff
2009-12-08	martinahansen	added read_ace	tree \| commitdiff
2009-12-01	martinahansen	fixed IO rename in write_kiss	tree \| commitdiff
2009-12-01	martinahansen	rename mistake fix2	tree \| commitdiff
2009-12-01	martinahansen	rename mistake fix1	tree \| commitdiff
2009-12-01	martinahansen	renamed KISS browser to Biopiece browser	tree \| commitdiff
2009-11-25	martinahansen	more KISS	tree \| commitdiff
2009-11-24	martinahansen	kiss_sort()	tree \| commitdiff
2009-11-24	martinahansen	fixed KISS	tree \| commitdiff
2009-11-24	martinahansen	rewrote upload_to_KISS	tree \| commitdiff
2009-11-16	martinahansen	hacked read_soft to deal with soft_files wo platform...	tree \| commitdiff
2009-11-16	martinahansen	misc changes	tree \| commitdiff
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