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biopieces.git
2013-12-13 martinahansenchanged fasta parse to allow leading empty lines commit | commitdiff | tree | snapshot
2013-12-11 martinahansenfixed wrap bug in seq.rb commit | commitdiff | tree | snapshot
2013-12-05 martinahansenfixed qual scores in sam.rb commit | commitdiff | tree | snapshot
2013-12-05 martinahansenfixed qual scores in sam.rb commit | commitdiff | tree | snapshot
2013-12-05 martinahansenfixed encoding bug in bowtie_seq commit | commitdiff | tree | snapshot
2013-12-04 martinahansenadded ugly fix to ruby gnuplot dumb print problem commit | commitdiff | tree | snapshot
2013-12-03 martinahansenfixed name issue in uclust_seq commit | commitdiff | tree | snapshot
2013-12-02 martinahansenfinishing slice_align biopiece commit | commitdiff | tree | snapshot
2013-12-02 martinahansenfinishing slice_align biopiece commit | commitdiff | tree | snapshot
2013-12-02 martinahansenadded more tests to slice_align commit | commitdiff | tree | snapshot
2013-12-02 martinahansenadded tests for slice_align commit | commitdiff | tree | snapshot
2013-12-02 martinahansenfixed bug in assemble_pairs commit | commitdiff | tree | snapshot
2013-11-29 martinahansenfixed read_454 tests commit | commitdiff | tree | snapshot
2013-11-29 martinahansenadded tests to find_orfs commit | commitdiff | tree | snapshot
2013-11-29 martinahansenfixed another each_orf bug commit | commitdiff | tree | snapshot
2013-11-29 martinahansenfixed bug in find_orfs commit | commitdiff | tree | snapshot
2013-11-29 martinahansenadded slice_align biopiece commit | commitdiff | tree | snapshot
2013-11-25 martinahansenfixed encoding bug in read_454 commit | commitdiff | tree | snapshot
2013-11-25 martinahansenfixed encoding in write_454 commit | commitdiff | tree | snapshot
2013-11-25 martinahansenplot_scores max length set to 100K commit | commitdiff | tree | snapshot
2013-11-07 martinahansenfixed installer issue commit | commitdiff | tree | snapshot
2013-10-30 martinahansenfixed bug in pair assembler commit | commitdiff | tree | snapshot
2013-10-30 martinahansenadded patscan_trim method to Seq commit | commitdiff | tree | snapshot
2013-10-25 martinahansenfixed analyze_vals issue commit | commitdiff | tree | snapshot
2013-10-25 martinahansenadded -o and -x to analyze_vals commit | commitdiff | tree | snapshot
2013-10-24 martinahansenrefactored backtrack methods to use options hash in... commit | commitdiff | tree | snapshot
2013-10-24 martinahansenfixed Seq object creation in sff.rb commit | commitdiff | tree | snapshot
2013-10-24 martinahansennow using roche mid module for find_barcodes commit | commitdiff | tree | snapshot
2013-10-24 martinahansenadded roche mid module commit | commitdiff | tree | snapshot
2013-10-24 martinahansenadding table.rb commit | commitdiff | tree | snapshot
2013-10-23 martinahansenremoved commented out stale code commit | commitdiff | tree | snapshot
2013-10-18 martinahansenfixed method name change commit | commitdiff | tree | snapshot
2013-10-17 martinahansenfixed QA_454_report.rb to work with new analyze_vals commit | commitdiff | tree | snapshot
2013-10-17 martinahansenfixed QA_454_report.rb to work with new analyze_vals commit | commitdiff | tree | snapshot
2013-10-17 martinahansenfixed QA_454_report.rb to work with new analyze_vals commit | commitdiff | tree | snapshot
2013-10-17 martinahansenfixed QA_454_report.rb to work with new analyze_vals commit | commitdiff | tree | snapshot
2013-10-16 martinahansencleanup of analyze_vals added analyze_scores commit | commitdiff | tree | snapshot
2013-10-15 martinahansenrewrote analyze_vals commit | commitdiff | tree | snapshot
2013-10-15 martinahansenrewrote write_tab commit | commitdiff | tree | snapshot
2013-10-15 martinahansenrewrote write_tab commit | commitdiff | tree | snapshot
2013-10-08 martinahansenrefactoring of assemble_pairs commit | commitdiff | tree | snapshot
2013-10-08 martinahansenfixed seq qual length check commit | commitdiff | tree | snapshot
2013-10-07 martinahansenDRY refactorying of backtrack code commit | commitdiff | tree | snapshot
2013-10-07 martinahansengzip fiddling commit | commitdiff | tree | snapshot
2013-10-07 martinahansenexchanged zlib code with commandline gzip commit | commitdiff | tree | snapshot
2013-10-07 martinahansenfixed symlink flaw in file type detection commit | commitdiff | tree | snapshot
2013-10-01 martinahansenchanged Seq.new argument to hash commit | commitdiff | tree | snapshot
2013-09-26 martinahansenadded test for length of seq/qual mismatch commit | commitdiff | tree | snapshot
2013-09-26 martinahansendisabling buggy bzip2-ruby commit | commitdiff | tree | snapshot
2013-09-26 martinahansentemporary fix of bzip2 read problem commit | commitdiff | tree | snapshot
2013-09-26 martinahansenadded prefix option to write_fasta_files and write_fast... commit | commitdiff | tree | snapshot
2013-09-25 martinahansenadded bzip2-ruby gem requirement commit | commitdiff | tree | snapshot
2013-09-25 martinahansenadded bzip2-ruby gem requirement commit | commitdiff | tree | snapshot
2013-09-25 martinahansenadded gzip/bzip2 output option to write_fastq_files commit | commitdiff | tree | snapshot
2013-09-25 martinahansenadded support for gzip/bzip2 in write_fasta_files ... commit | commitdiff | tree | snapshot
2013-09-25 martinahansenported write_fasta to ruby enabling bzip2 support commit | commitdiff | tree | snapshot
2013-09-25 martinahansenadded bzip output test to write_fastq commit | commitdiff | tree | snapshot
2013-09-25 martinahansenadding bzip2 support in ruby commit | commitdiff | tree | snapshot
2013-09-23 martinahansenfixed isseu in find_orphans commit | commitdiff | tree | snapshot
2013-09-23 martinahansencreated find_orphans Biopiece commit | commitdiff | tree | snapshot
2013-09-18 martinahansenbeautifing ambiguity.rb commit | commitdiff | tree | snapshot
2013-09-18 martinahansenimplemented hamming_dist in inline C commit | commitdiff | tree | snapshot
2013-09-18 martinahansenadd comments to ambiguity.rb commit | commitdiff | tree | snapshot
2013-09-18 martinahansenfixed broken tests not workin with Ruby2 commit | commitdiff | tree | snapshot
2013-09-18 martinahansenadded amiguity.rb commit | commitdiff | tree | snapshot
2013-09-18 martinahansenadded mem.rb commit | commitdiff | tree | snapshot
2013-09-18 martinahansenadded ambiguity to hamming_distance commit | commitdiff | tree | snapshot
2013-09-16 martinahansenfixed overlap bug in patscan_seq commit | commitdiff | tree | snapshot
2013-09-13 martinahansenadded missing cpus switch to uclust_seq commit | commitdiff | tree | snapshot
2013-09-09 martinahansenpolish usearch_seq commit | commitdiff | tree | snapshot
2013-09-09 martinahansenpolish uclust_seq commit | commitdiff | tree | snapshot
2013-09-09 martinahansenfixing usearch upgrade commit | commitdiff | tree | snapshot
2013-09-06 martinahansenupgraded uclust_seq to support usearch7 commit | commitdiff | tree | snapshot
2013-06-24 martinahansenfixed genbank and embl parsing of 5'UTR and 3'UTR commit | commitdiff | tree | snapshot
2013-06-24 martinahansenadded \r remove hack to genbank/embl parsers commit | commitdiff | tree | snapshot
2013-06-23 martinahansenmoved inline C code to seperate file commit | commitdiff | tree | snapshot
2013-06-21 martinahansenadded edit_distance method to seq.rb commit | commitdiff | tree | snapshot
2013-06-21 martinahansenfixed ambiguity in levenshtein.rb commit | commitdiff | tree | snapshot
2013-06-20 martinahansenadded levenshtein edit distance calculator commit | commitdiff | tree | snapshot
2013-06-20 martinahansenadded levenshtein edit distance calculator commit | commitdiff | tree | snapshot
2013-06-20 martinahansenadded levenshtein edit distance calculator commit | commitdiff | tree | snapshot
2013-06-17 martinahansenupdated patscan_seq commit | commitdiff | tree | snapshot
2013-06-17 martinahansenupdated patscan_seq commit | commitdiff | tree | snapshot
2013-06-04 martinahansenadded missing files commit | commitdiff | tree | snapshot
2013-06-04 martinahansenrevamped find_homopolymers commit | commitdiff | tree | snapshot
2013-05-16 martinahansenmore verbose grab output commit | commitdiff | tree | snapshot
2013-05-16 martinahansenadded verbose count to grab commit | commitdiff | tree | snapshot
2013-05-06 martinahansenfixed QA_Illumina_report.rb encoding commit | commitdiff | tree | snapshot
2013-04-29 martinahansenfixed missing BP_TMP dir feature commit | commitdiff | tree | snapshot
2013-04-18 martinahansenfixed divide bug in compute commit | commitdiff | tree | snapshot
2013-04-11 martinahansenfixed bug in index_vals commit | commitdiff | tree | snapshot
2013-04-11 martinahansenadded index_vals biopiece commit | commitdiff | tree | snapshot
2013-03-20 martinahansencorrected pcr_seq revcomp of patterns commit | commitdiff | tree | snapshot
2013-03-16 martinahansenchanged upper/lower case output in assemble_pairs commit | commitdiff | tree | snapshot
2013-03-13 martinahansendropped pandaseq requirement commit | commitdiff | tree | snapshot
2013-03-13 martinahansenfixed minor upcase bug in assemble.rb commit | commitdiff | tree | snapshot
2013-03-13 martinahansenupgraded tests of read_sff commit | commitdiff | tree | snapshot
2013-03-13 martinahansenfinish assemble_pairs revamp commit | commitdiff | tree | snapshot
2013-03-13 martinahansenassemble_pairs revamp commit | commitdiff | tree | snapshot
2013-03-13 martinahansenadded comments to code commit | commitdiff | tree | snapshot
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