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biopieces.git
2012-12-04 martinahansenfixed unit tests for patternmatcher commit | commitdiff | tree | snapshot
2012-12-04 martinahansenadded some text commit | commitdiff | tree | snapshot
2012-12-03 martinahansenfixed constants for align.rb commit | commitdiff | tree | snapshot
2012-12-03 martinahansenported patternmatcher to C commit | commitdiff | tree | snapshot
2012-11-30 martinahansenfinished backtrack drama commit | commitdiff | tree | snapshot
2012-11-30 martinahansenadded state to backtrack.rb commit | commitdiff | tree | snapshot
2012-11-30 martinahansendone revert of test_backtrack.rb commit | commitdiff | tree | snapshot
2012-11-30 martinahansenreverted test_backtrack.rb to r1827 commit | commitdiff | tree | snapshot
2012-11-30 martinahansenreverted backtrack.rb to 2006 prior to struct version commit | commitdiff | tree | snapshot
2012-11-29 martinahansendisabling backtrack which causes compile error commit | commitdiff | tree | snapshot
2012-11-29 martinahansenadded 3 parameters to blast_seq commit | commitdiff | tree | snapshot
2012-11-28 martinahansenfixing up backtrack code commit | commitdiff | tree | snapshot
2012-11-28 martinahansenadded output of mis ind and del to backtrack code commit | commitdiff | tree | snapshot
2012-11-27 martinahansenpolished backtrack.rb commit | commitdiff | tree | snapshot
2012-11-27 martinahansenbacktrack.rb polish commit | commitdiff | tree | snapshot
2012-11-27 martinahansenadded -c to nuc dist plot commit | commitdiff | tree | snapshot
2012-11-27 martinahansenadded -c to plot_nuc_dist commit | commitdiff | tree | snapshot
2012-11-27 martinahansenadded missing seq fix to plot_nucleotide_distribution commit | commitdiff | tree | snapshot
2012-11-27 martinahansenadded relative count to plot_nucleotide_distribution commit | commitdiff | tree | snapshot
2012-11-27 martinahansenmore power to the QA commit | commitdiff | tree | snapshot
2012-11-26 martinahansenmore power to the QA commit | commitdiff | tree | snapshot
2012-11-26 martinahansenadded adaptor removal to QA commit | commitdiff | tree | snapshot
2012-11-26 martinahansenpolish of QA_Illumina_report.rb commit | commitdiff | tree | snapshot
2012-11-23 martinahansensmall fix QA_Illumina_report.rb commit | commitdiff | tree | snapshot
2012-11-23 martinahansenadded QA_Illumina_report.rb commit | commitdiff | tree | snapshot
2012-11-21 martinahansenadded exception handling for missing SFF coordinates commit | commitdiff | tree | snapshot
2012-11-20 martinahansenadded uchime to usearch commit | commitdiff | tree | snapshot
2012-11-19 martinahansenadd uchime_seq biopiece commit | commitdiff | tree | snapshot
2012-11-02 martinahansenadded tests for find_pairs commit | commitdiff | tree | snapshot
2012-11-02 martinahansenremoving order_pairs2 and order_pairs3 commit | commitdiff | tree | snapshot
2012-11-02 martinahansenfind_pairs added commit | commitdiff | tree | snapshot
2012-11-01 martinahansenfixed but in order_pairs3 commit | commitdiff | tree | snapshot
2012-11-01 martinahansenadded verbose info to order_pairs3 commit | commitdiff | tree | snapshot
2012-11-01 martinahansenadded get_entry method to biopieces.rb commit | commitdiff | tree | snapshot
2012-11-01 martinahansenadding order_pairs3 commit | commitdiff | tree | snapshot
2012-10-31 martinahansenchanged order_pairs2 to gdbm commit | commitdiff | tree | snapshot
2012-10-31 martinahansenchanged order_pairs2 to gdbm commit | commitdiff | tree | snapshot
2012-10-31 martinahansenadded order_pairs2 commit | commitdiff | tree | snapshot
2012-10-31 martinahansenadded order_pairs2 commit | commitdiff | tree | snapshot
2012-10-26 martinahansenupdated installer commit | commitdiff | tree | snapshot
2012-10-25 martinahansenupdated installer commit | commitdiff | tree | snapshot
2012-10-25 martinahansenadded debranch function to classify_taxonomy commit | commitdiff | tree | snapshot
2012-10-24 martinahansenupdated classify_taxonomy to GG12-10 commit | commitdiff | tree | snapshot
2012-10-23 martinahansenfixed nasty bug in classify_taxonomy commit | commitdiff | tree | snapshot
2012-10-22 martinahansenfixed nasty bug in classify_taxonomy commit | commitdiff | tree | snapshot
2012-10-16 martinahansenremoved raise from classify_taxonomy commit | commitdiff | tree | snapshot
2012-10-15 martinahansenremoved raise from classify_taxonomy commit | commitdiff | tree | snapshot
2012-10-12 martinahansenfixed classify_taxonomy commit | commitdiff | tree | snapshot
2012-10-10 martinahansenadded some file locking to biopieces.rb commit | commitdiff | tree | snapshot
2012-10-10 martinahansenadded some file locking to Biopieces.pm commit | commitdiff | tree | snapshot
2012-10-10 martinahansenadded flock to biostat commit | commitdiff | tree | snapshot
2012-10-10 martinahansenremoved stale file crap from biostat commit | commitdiff | tree | snapshot
2012-10-10 martinahansenadded dynamic mem allocation to findsim.rb commit | commitdiff | tree | snapshot
2012-10-10 martinahansenadded dynamic mem allocation to findsim.rb commit | commitdiff | tree | snapshot
2012-10-09 martinahansenchanged default values for findsim_seq commit | commitdiff | tree | snapshot
2012-10-09 martinahansencleanup of findsim.rb commit | commitdiff | tree | snapshot
2012-10-09 martinahansencleanup of findsim_seq commit | commitdiff | tree | snapshot
2012-10-09 martinahansencleanup of findsim.rb commit | commitdiff | tree | snapshot
2012-09-27 martinahansenupgraded kmer_freq test commit | commitdiff | tree | snapshot
2012-09-27 martinahansenpolished kmer_freq commit | commitdiff | tree | snapshot
2012-09-27 martinahansenremoved kmer_freq test files commit | commitdiff | tree | snapshot
2012-09-27 martinahansenclearning up kmer_stats and kmer_freq commit | commitdiff | tree | snapshot
2012-09-27 martinahansenfinishing work on match.rb commit | commitdiff | tree | snapshot
2012-09-25 martinahansenwork kmer_stats biopiece commit | commitdiff | tree | snapshot
2012-09-25 martinahansenadded kmer_stats biopiece commit | commitdiff | tree | snapshot
2012-09-21 martinahansenadded parser for phred qual to fasta.rb commit | commitdiff | tree | snapshot
2012-09-21 martinahansenadded qual_base(33|64)? methods to seq.rb commit | commitdiff | tree | snapshot
2012-09-21 martinahansenslight polish of read_fastq commit | commitdiff | tree | snapshot
2012-09-20 martinahansenadded bases_per_file option to find_adaptor commit | commitdiff | tree | snapshot
2012-09-19 martinahansenfixed database type guess for blast_seq commit | commitdiff | tree | snapshot
2012-09-13 martinahansenpair.rb now working correctly commit | commitdiff | tree | snapshot
2012-09-12 martinahansenworked on pair aligner commit | commitdiff | tree | snapshot
2012-09-11 martinahansenworking on pair.rb commit | commitdiff | tree | snapshot
2012-09-11 martinahansenadded align/match.rb commit | commitdiff | tree | snapshot
2012-09-11 martinahansenworked on pair.rb commit | commitdiff | tree | snapshot
2012-09-10 martinahansenfixed unit tests for seq.rb commit | commitdiff | tree | snapshot
2012-09-04 martinahansenadded math_aux.rb commit | commitdiff | tree | snapshot
2012-09-04 martinahansenadded test_math_aux.rb commit | commitdiff | tree | snapshot
2012-09-04 martinahansenfixed bug in clip_adaptor where LEFT_POS > RIGHT_POS commit | commitdiff | tree | snapshot
2012-09-04 martinahansenfixed bug in clip_adaptor where LEFT_POS > RIGHT_POS commit | commitdiff | tree | snapshot
2012-09-03 martinahansenrevamped find_adaptor and clip_adaptor commit | commitdiff | tree | snapshot
2012-09-03 martinahansenupdated testing files for find_adaptor and clip_adaptor commit | commitdiff | tree | snapshot
2012-08-30 martinahansendeleted old QA_454_report script commit | commitdiff | tree | snapshot
2012-08-30 martinahansenadded nucleotide plot to QA_454_report commit | commitdiff | tree | snapshot
2012-08-30 martinahansenadded plot_nucleotide_distribution biopiece commit | commitdiff | tree | snapshot
2012-08-30 martinahansenfinally figured how to change plot color commit | commitdiff | tree | snapshot
2012-08-16 martinahansendid something to findsim.rb commit | commitdiff | tree | snapshot
2012-08-15 martinahansenmade find_orfs run on DNA or RNA commit | commitdiff | tree | snapshot
2012-08-14 martinahansenfixed mean_scores to deal with 0 length seqs commit | commitdiff | tree | snapshot
2012-08-14 martinahansenreverted trim_seq commit | commitdiff | tree | snapshot
2012-08-14 martinahansenchanged trim_seq to omit outputting sequences with... commit | commitdiff | tree | snapshot
2012-08-09 martinahansenupgraded QA script to use new plot scores count feature commit | commitdiff | tree | snapshot
2012-08-07 martinahansenlast fix on prodigal upgrade commit | commitdiff | tree | snapshot
2012-08-07 martinahansenupgraded prodigal commit | commitdiff | tree | snapshot
2012-08-07 martinahansenfixed typo commit | commitdiff | tree | snapshot
2012-08-07 martinahansenadded assemble_seq_idba_ud commit | commitdiff | tree | snapshot
2012-08-07 martinahansenadded relative count to plot_scores + rewrite for speed commit | commitdiff | tree | snapshot
2012-08-06 martinahansenremoved outdated installer commit | commitdiff | tree | snapshot
2012-08-06 martinahansenupdated biopieces installer commit | commitdiff | tree | snapshot
2012-07-13 martinahansenfixed another bug in find orfs commit | commitdiff | tree | snapshot
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Mirror (and my branches) of biopieces http://www.biopieces.org/