diff --git a/precellar/data/bd_cls1.txt b/precellar/data/bd_cls1.txt new file mode 100644 index 0000000..bf6a0da --- /dev/null +++ b/precellar/data/bd_cls1.txt @@ -0,0 +1,384 @@ +TGTGTTCGC +TGTGGCGCC +TGTCTAGCG +TGGTTGTCC +TGGTTCCTC +TGGTGTGCT +TGGCGACCG +TGCTGTGGC +TGCTGGCAC +TGCTCTTCC +TGCCTCACC +TGCCATTAT +TGATGTCTC +TGATGGCCT +TGATGCTTG +TGAAGGACC +TCTGTCTCC +TCTGATTAT +TCTGAGGTT +TCTCGTTCT +TCTCATCCG +TCCTGGATT +TCAGCATTC +TCACGCCTT +TATGTGCAC +TATGCGGCC +TATGACGAG +TATCTCGTG +TATATGACC +TAGGCTGTG +TACTGCGTT +TACGTGTCC +TAATCACAT +GTTGTGTTG +GTTGTGGCT +GTTGTCTGT +GTTGTCGAG +GTTGTCCTC +GTTGTATCC +GTTGGTTCT +GTTGGCGTT +GTTGGAGCG +GTTGCTGCC +GTTGCGCAT +GTTGCAGGT +GTTGCACTG +GTTGATGAT +GTTGATACG +GTTGAAGTC +GTTCTGTGC +GTTCTCTCG +GTTCTATAT +GTTCGTATG +GTTCGGCCT +GTTCGCGGC +GTTCGATTC +GTTCCGGTT +GTTCCGACG +GTTCACGCT +GTTATCACC +GTTAGTCCG +GTTAGGTGT +GTTAGAGAC +GTTAGACTT +GTTACCTCT +GTTAATTCC +GTTAAGCGC +GTGTTGCTT +GTGTTCGGT +GTGTTCCAG +GTGTTCATC +GTGTCACAC +GTGTCAAGT +GTGTACTGC +GTGGTTAGT +GTGGTACCG +GTGGCGATC +GTGCTTCTG +GTGCGTTCC +GTGCGGTAT +GTGCGCCTT +GTGCGAACT +GTGCAGCCG +GTGCAATTG +GTGCAAGGC +GTCTTGCGC +GTCTGGCCG +GTCTGAGGC +GTCTCAGAT +GTCTCAACC +GTCTATCGT +GTCGGTGTG +GTCGGAATC +GTCGCTCCG +GTCCTCGCC +GTCCTACCT +GTCCGCTTG +GTCCATTCT +GTCCAATAC +GTCATGTAT +GTCAGTGGT +GTCAGATAG +GTATTAACT +GTATCAGTC +GTATAGCCT +GTATACTTG +GTATAAGGT +GTAGCATCG +GTACCGTCC +GTACACCTC +GTAAGTGCC +GTAACAGAG +GGTTGTGTC +GGTTGGCTG +GGTTGACGC +GGTTCGTCG +GGTTCAGTT +GGTTATATT +GGTTAATAC +GGTGTACGT +GGTGCCGCT +GGTGCATGC +GGTCGTTGC +GGTCGAGGT +GGTAGGCAC +GGTAGCTTG +GGTACATAG +GGTAATCTG +GGCTTGGCC +GGCTTCACG +GGCTTATGT +GGCTTACTC +GGCTGTCTT +GGCTCTGTG +GGCTCCGGT +GGCTCACCT +GGCGTTGAG +GGCGTGTAC +GGCGTGCTG +GGCGTATCG +GGCGCTCGT +GGCGCTACC +GGCGAGCCT +GGCGAGATC +GGCGACTTG +GGCCTCTTC +GGCCTACAG +GGCCAGCGC +GGCCAACTT +GGCATTCCT +GGCATCCGC +GGCATAACC +GGCAACGAT +GGATGTCCG +GGATGAGAG +GGATCTGGC +GGATCCATG +GGATAGGTT +GGAGTCGTG +GGAGAAGGC +GGACTCCTT +GGACTAGTC +GGACCGTTG +GGAATTAGT +GGAATCTCT +GGAATCGAC +GGAAGCCTC +GCTTGTAGC +GCTTGACCG +GCTTCGGAC +GCTTCACAT +GCTTAGTCT +GCTGGATAT +GCTGGAACC +GCTGCGATG +GCTGATCAG +GCTGAGCGT +GCTCTTGTC +GCTCTCCTG +GCTCGGTCC +GCTCCAATT +GCTATTCGC +GCTATGAGT +GCTAGTGTT +GCTAGGATC +GCTAGCACT +GCTACGTAT +GCTAACCTT +GCGTTCCGC +GCGTGTGCC +GCGTGCATT +GCGTCGGTT +GCGTATGTG +GCGTATACT +GCGGTTCAC +GCGGTCTTG +GCGGCGTCG +GCGGCACCT +GCGCTGGAC +GCGCTCTCC +GCGCGGCAG +GCGCGATAC +GCGCCGACC +GCGAGCGAG +GCGAGAGGT +GCGAATTAC +GCCTTGCAT +GCCTGCGCT +GCCTAACTG +GCCGTCCGT +GCCGCTGTC +GCCATGCCG +GCCAGCTAT +GCCAACCAG +GCATGGTTG +GCATCGACG +GCAGGCTAG +GCAGGACGC +GCAGCCATC +GCAGATACC +GCAGACGTT +GCACTATGT +GCACACGAG +GATTGTCAT +GATTGGTAG +GATTGCACC +GATTCTACT +GATTCGCTT +GATTAGGCC +GATTACGGT +GATGTTGGC +GATGTTATG +GATGGCCAG +GATCGTTCG +GATCGGAGC +GATCGCCTC +GATCCTCTG +GATCCAGCG +GATACACGC +GAGTTACCT +GAGTCGTAT +GAGTCGCCG +GAGGTGTAG +GAGGCATTG +GAGCGGACG +GAGCCTGAG +GAGATCTGT +GAGATAATT +GAGACGGCT +GACTTCGTG +GACTGTTCT +GACTCTTAG +GACCGCATT +GAATTGAGC +GAATATTGC +GAAGGCTCT +GAAGAGACT +GAACTGCCG +GAACGCGTG +CTTGTGTAT +CTTGTGCGC +CTTGTCATG +CTTGGTCTT +CTTGGTACC +CTTGGATGT +CTTGCTCAC +CTTGCAATC +CTTGAGGCC +CTTGACGGT +CTTCTGATC +CTTCTCGTT +CTTCTAGGC +CTTCGTTAG +CTTATGTCC +CTTATGCTT +CTTATATAG +CTTAGGTTG +CTTAGGAGC +CTTACTTAT +CTGTTCTCG +CTGTGCCTC +CTGTCGCAT +CTGTCGAGC +CTGTAGCTG +CTGTACGTT +CTGCTTGCC +CTGCGTAGT +CTGCACACC +CTGATGGAT +CTGAGTCAT +CTGACGCCG +CTGAACGAG +CTCTTGTAG +CTCTTAGTT +CTCTTACCG +CTCTGCACC +CTCTCGTCC +CTCGTATTG +CTCGACTAT +CTCCTGACG +CTCACTAGC +CTATACGGC +CGTTCGCTC +CGTTCACCG +CGTATAGTT +CGGTGTTCC +CGGTGTCAG +CGGTCCTGC +CGGCGACTC +CGGCACGGT +CGGATAGCC +CGGAGAGAT +CGCTAATAG +CGCGTTGGC +CGCGCAGAG +CGCACTGCC +CCTTGTCTC +CCTTGGCGT +CCTTCTGAG +CCTTCTCCT +CCTTCGACC +CCTTACTTG +CCTGTTCGT +CCTGTATGC +CCTCGGCCG +CCGTTAATT +CCATGTGCG +CCAGTGGTT +CCAGGCATT +CCAGGATCC +CCAGCGTTG +CATTCCGAT +CATTATACC +CATGTTGAG +ATTGCGTGT +ATTGCGGAC +ATTGCGCCG +ATTGACTTG +ATTCGGCTG +ATTCGCGAG +ATTCCAAGT +ATTATCTTC +ATTACTGTT +ATTACACTC +ATGTTCTAT +ATGTTACGC +ATGTGTATC +ATGTGGCAG +ATGTCTGTG +ATGGTGCAT +ATGCTTACT +ATGCTGTCC +ATGCTCGGC +ATGAGGTTC +ATGAGAGTG +ATCTTGGCT +ATCTGTGCG +ATCGGTTCC +ATCATGCTC +ATCATCACT +ATATCTTAT +ATAGGCGCC +AGTTGGTAT +AGTTGAGCC +AGTGCGACC +AGGTGCTAC +AGGCTTGCG +AGGCCTTCC +AGGCACCTT +AGGAATATG +AGCGGCCAG +AGCCTGGTC +AGCCTGACT +AGCAATCCG +AGAGATGTT +AGAGAATTC +ACTCGCTTG +ACTCGACCT +ACGTACACC +ACGGATGGT +ACCAGTCTG +ACATTCGGC +ACATGAGGT +ACACTAATT diff --git a/precellar/data/bd_cls2.txt b/precellar/data/bd_cls2.txt new file mode 100644 index 0000000..91caf09 --- /dev/null +++ b/precellar/data/bd_cls2.txt @@ -0,0 +1,384 @@ +TTGTGTTGT +TTGTGGTAG +TTGTGCGGA +TTGTCTGTT +TTGTCTAAG +TTGTCATAT +TTGTCACGA +TTGTATGAA +TTGTACAGT +TTGGTTAAT +TTGGTGCAA +TTGGTCGAG +TTGGTATTA +TTGGCACAG +TTGGATACA +TTGGAAGTG +TTGCGGTTA +TTGCCATTG +TTGCACGCG +TTGCAAGGT +TTGATGTAT +TTGATAATT +TTGAGACGT +TTGACTACT +TTGACCGAA +TTCTGGTCT +TTCTGCACA +TTCTCCTTA +TTCTCCGCT +TTCTAGGTA +TTCTAATCG +TTCGTCGTA +TTCGTAGAT +TTCGGCTTG +TTCGGAATA +TTCGCCAGA +TTCGATTGT +TTCGATCAG +TTCCTCGGT +TTCCGGCAG +TTCCGCATT +TTCCAATTA +TTCATTGAA +TTCATGCTG +TTCAGGAGT +TTCACTATA +TTCAACTCT +TTCAACGTG +TTATGCGTT +TTATGATTG +TTATCCTGT +TTATCCGAG +TTATATTAT +TTAGGCGCG +TTACTGGAA +TTACTAGTT +TTACGTGGT +TTACGATAT +TTACCTAGA +TTACATGAG +TTACAGCGT +TTACACGGA +TTACACACT +TTAATCAGT +TTAATAGGA +TTAAGTGTG +TTAACCTTG +TTAACACAA +TGTTCACTT +TGTTCAAGA +TGTTAAGTG +TGTGTTATG +TGTGTCCAA +TGTGGAGCG +TGTCAGTTA +TGTCAGAAG +TGGTTAGTT +TGGTTACAA +TGGCGTTAT +TGGCGCCAA +TGGAGTCTT +TGCGTATTG +TGATAGAGA +TGAGGTATT +TGAGAATCT +TCTTGGTAA +TCTTCATAG +TCTGTCCTT +TCTGGAATT +TCTACCGCG +TCGTTCGAA +TCGTCAGTG +TCGACGAGA +TCATGGCTT +TCACACTTA +TATTCCGAA +TATTATGGT +TATGCTATT +TATCAAGGA +TAGTTCAAT +TAGCTGCTT +TAGAGGAAG +TACCTGTTA +TACACCTGT +GTTGTGCGT +GTTGGCTAT +GTTGCCAAG +GTTGACCTT +GTTCTGCTA +GTTCTGAAT +GTTCTATCA +GTTCGCGTG +GTTCCTTAT +GTTAGCAGT +GTTACTGTG +GTTACTCAA +GTTAAGAGA +GTTAACTTA +GTGTCGGCA +GTGTCCATT +GTGCTTGAG +GTGCTCGTT +GTGCTCACA +GTGCCTGGA +GTCTTGTCG +GTCTTGATT +GTCTTCCGT +GTCTTAAGA +GTCTCATCT +GTCTACGAG +GTCGTTGCT +GTCGTGTTA +GTCGGTAAT +GTCGGATGT +GTCGAGCTG +GTCCGGACT +GTCCAACAT +GTCAGACGA +GTCAGAATT +GTCACTCTT +GTCAAGGAA +GTATGTCTT +GTATGTACA +GTATCGGTT +GTATATGTA +GTATACAAT +GTAGTTAAG +GTAGTCGAT +GTAGCCTTA +GTAGATACT +GTACGATTA +GTACAGTCT +GTAATTCGT +GCTTGGCAG +GCTTGCTTG +GCTTGAGGA +GCTTCATTA +GCTTATGCG +GCTGTGTAG +GCTGTCATG +GCTGGTTGT +GCTGGACTG +GCTGCCTAA +GCTGATATT +GCTCTTAGT +GCTCTATTG +GCTCGCCGT +GCTCCGCTG +GCTATTCTG +GCTATACGA +GCTACTAAG +GCTACATGT +GCTAACTCT +GCGTTGTAA +GCGTTCTCT +GCGTGCGTA +GCGTCTTGA +GCGTCCGAT +GCGTAAGAG +GCGCTTACG +GCGCGGATT +GCGCCATAT +GCGCATGAA +GCGATCAAT +GCGAGCCTT +GCGAGATTG +GCGAGAACA +GCCTTGGTA +GCCTTCTAG +GCCTTCACA +GCCTGAGTG +GCCTCACGT +GCCGGCGAA +GCCGCACAA +GCCATGCTT +GCCATATAT +GCCAATTCG +GCATTCGTT +GCATGATGT +GCAGTTGGA +GCAGTGTCT +GCACTTGTG +GCAATCTGT +GCAACACTT +GATTGTATT +GATTGCGAG +GATTCCAGT +GATTCATAT +GATTATCAG +GATTAGGTT +GATGTTGCG +GATGGATCT +GATGCTGAT +GATGCCTTG +GATCTCCTT +GATCGCTTA +GATATTGAA +GATATTACT +GAGTGTTAT +GAGCTCAGT +GAGCGTGCT +GAGCGTCGA +GAGCGGTTG +GAGCGACTT +GAGCCGAAT +GAGATAGAT +GAGACCTAT +GACGGTCGT +GACGCAGGT +GACGATATG +GACCTATCT +GAATTAGGA +GAATCAGCT +GAAGTTCAT +GAAGTGGTT +GAAGTATTG +GAAGGCATT +GAACGCTGT +CTTGTCCAG +CTTGGATTG +CTTGCTGAA +CTTGCCGTG +CTTGATTCT +CTTCTGTCG +CTTCGGCGT +CTTATGAGT +CTTACCGAT +CTGTTAGGT +CTGTCGTCT +CTGTATAAT +CTGGCTCAT +CTGGATGCG +CTGCGTGTG +CTGCGCGGT +CTGCCGATT +CTGCATTGT +CTGATTAAG +CTGAGATAT +CTGACCTGT +CTCGTATCT +CTCGGCAAG +CTCGCAATT +CTCCTGCTT +CTCCTAAGT +CTCCGGATG +CTCCGAGCG +CTCACAGGT +CTATTCTAT +CTATTAGTG +CTATGAATT +CTACATATT +CGTGGCATT +CGTCTTAAT +CGTCTGGTT +CGTCACTGT +CGTAGGTCT +CGGTTCGAG +CGGTTCATT +CGGTGCTCT +CGGTAATTG +CGGCCTGAT +CGGATATAG +CGGAATATT +CGCTCCAAT +CGCGTTCGT +CGCAGGTTG +CGAGGATGT +CGAGCTGTT +CGACGGCTT +CCTTGTGTG +CCTGTCTCA +CCTGACTAT +CCTACCTTG +CCGTAGATT +CCGGCTGGT +CATCGGACG +CATCGATAA +CATCCTTCT +CAGTTCTGT +CAGTGCCAG +CAGGCACTG +CAGCCTCTT +CACTTATAT +CACTGGTCG +CACTGCATG +CACGCGTTG +CACGATGTT +CACCATCTG +CACAGGCGT +ATTGTACAA +ATTGGTATG +ATTGCTAAT +ATTGCATAG +ATTGCAGTT +ATTCTGCAG +ATTCTACGT +ATTCGGATT +ATTCCGTTG +ATTCATCAA +ATTCAAGAG +ATTAGCCTT +ATTAATATT +ATGTTAGAG +ATGTTAACT +ATGTAGTCG +ATGGTGTAG +ATGGATTAT +ATCTTGAAG +ATCTGATAT +ATCTCAGAA +ATCGCTCAA +ATCGCGTCG +ATCCATGGT +ATCATGAGA +ATCATAGTT +ATCAGCGAG +ATCACCATT +ATAGTAATT +ATAGCTGTG +ATACTCTCG +ATACCTCAT +AGTTGCGCG +AGTTGAATT +AGTTATGAT +AGTGTCCGT +AGTGGCTTG +AGTGCTTCT +AGTATCATT +AGTACACAA +AGGTATGCG +AGGTATAGT +AGGCTACTT +AGGCCAGGT +AGGAGCGAT +AGCTTATAG +AGCTCTAGA +AGCGTGTAT +AGCGTCACA +AGCCTTCAT +AGCCTGTCG +AGCCTCGAG +AGCACTGAA +AGATGTACG +AGAGTTAAT +AGACCTCTG +ACTTCTATA +ACTGTCGAG +ACTGTATGT +ACTCTGTAA +ACTCGCGAA +ACTAGATCT +ACTAACGTT +ACGTTACTG +ACGTGGAAT +ACGGACTCT +ACGCCTAAT +ACGCCGTTA +ACGACGTGT +ACCTCGCAT +ACCATCATA +ACATATATT +ACAGGCACA +ACACCTGAG +ACACATTCT diff --git a/precellar/data/bd_cls3.txt b/precellar/data/bd_cls3.txt new file mode 100644 index 0000000..430d6ee --- /dev/null +++ b/precellar/data/bd_cls3.txt @@ -0,0 +1,384 @@ +TTGTGGCTG +TTGTGGAGT +TTGTGCGAC +TTGTCTTCA +TTGTAAGAT +TTGGTTCTG +TTGGTGCGT +TTGGTCTAC +TTGGTAACT +TTGGCGTGC +TTGGATTAG +TTGGAGACG +TTGGAATCA +TTGCGGCGA +TTGCGCTCG +TTGCCTTAC +TTGCCGGAT +TTGCATGCT +TTGCACGTC +TTGCACCAT +TTGAACCTG +TTCTCGCGT +TTCTCAACT +TTCTACTCA +TTCGTCCAT +TTCGGATAC +TTCGGACGT +TTCGCAATC +TTCCGGTGC +TTCCGACTG +TTCATTATG +TTCATGGAT +TTCAGCGCA +TTCACCTCG +TTCAAGCAG +TTCAACTAC +TTATGCCAG +TTATGCATC +TTATCGTAC +TTATACCTA +TTATAATAG +TTATAAGTC +TTAGTTAGC +TTAGCTCAT +TTAGCACTA +TTAGATATG +TTACTACGA +TTACCGTCA +TTACAGAGC +TTAATTGCA +TTAACAGAT +TGTTGGCTA +TGTTGATGA +TGTTAAGCT +TGTGGCCGA +TGTGCTAGC +TGTGCGTCA +TGTCGCAGT +TGTCGAGCA +TGTACAACG +TGGTTCCGA +TGGTTCACT +TGGTCAAGT +TGGCTTGTA +TGGCTGTCG +TGGCGTATG +TGGCGCGCT +TGGATGTAC +TGGACTTGC +TGGAATACT +TGCTAGCGA +TGCGTTGCT +TGCGGTCTG +TGCGCTTAG +TGCGCGACG +TGCCTGCAT +TGCCTAGAC +TGCACGAGT +TGAGTGTGC +TGAGGCTCG +TCTTCCGTC +TCTTATAGT +TCTTACCAT +TCTGTTGTC +TCTGTTACT +TCTGGCTAG +TCTCAGATC +TCTAGTTGA +TCTAGTACG +TCGTACTAC +TCGGTGTAG +TCGGCTGCT +TCGCTACTG +TCGATCACG +TCGAGGCAT +TCCGGCGTC +TCCGGAGCT +TCCGCTCGT +TCCGAGTAC +TCCATTCAT +TCCATGGTC +TCCAAGTCG +TCATTACGT +TCATGCACT +TCAGGTTGC +TCAGACCGT +TCACTCAGT +TCAAGCTCA +TATTGCGCA +TATTCGGCT +TATTCCAGC +TATTCATCA +TATGTTCAG +TATGGTATG +TATGCAAGT +TATCTGGTC +TATCTGACT +TATCCAGAT +TATCAGTCG +TATCACGCT +TAGGCGCGA +TAGGCACAT +TAGGATCGT +TAGCATTGC +TAGAGTTAC +TAGACTGAT +TACTTGTCG +TACGTCCGA +TACCGTACT +TACCGCGAT +TACCAGGAC +TACAGAAGT +TAAGTGCAT +TAAGCTACT +GTTGACCGA +GTTCTCGAC +GTTCCTGCT +GTTATGATG +GTGCTTGCA +GTGCCGCGT +GTATTGCTG +GTATTCCGA +GTATTAAGC +GTATGACGT +GTAGTTGTC +GTAGTACAT +GTAGCTCGA +GGTTGCTCA +GGTTGAGTA +GGTTAACGT +GGTGTGGCA +GGTCTTCAG +GGTCGTCTA +GGTCGGCGT +GGTCCGACT +GGTCATGTC +GGTCACATG +GGTAGTGCT +GGTAGCGTC +GGTACCAGT +GGTAAGGAT +GGCTTGTGC +GGCTTGACT +GGCTTACGA +GGCTGTAGT +GGCTGGCAG +GGCTCCATC +GGCGTGGAT +GGCGTAATC +GGCGCAAGT +GGCGAGTAG +GGCGACCGT +GGCCTGTCA +GGCCATTGC +GGCACTCTG +GGATGTCAT +GGAGTAACT +GGAGAACGA +GGACTGGCT +GGACGTTCA +GGAACGTGC +GCTGTCCAT +GCTGGTTCA +GCTGCAACT +GCTCGTTAC +GCTATAGAT +GCTAGTCGT +GCTACCATG +GCGTTCTGA +GCGTGTTAG +GCGGTATCG +GCGGAGCAT +GCGCGGTGC +GCGCCTAGT +GCGCCGGCT +GCCTTCATG +GCCATACTG +GCATGTTGA +GCATGCTAC +GCAGTATAC +GCAGGTACT +GCAGCGCGT +GCACCTCAT +GCAATTCGA +GATTGCCGT +GATGAACAT +GATCTTCGA +GATCTGCAT +GAGTGGCAT +GAGTCGGAC +GAGTATGAT +GAGGCGAGT +GAGGCAACG +GAGCGCACT +GAATAGGCT +ATTGTCACT +ATTGTATCA +ATTGGTCAG +ATTGGCGAT +ATTGATCGT +ATTCGTAGT +ATTCATACG +ATTCAGGAC +ATTACTTCA +ATTAATTAG +ATTAAGCAT +ATGTCTCTA +ATGTAGCGT +ATGGCATAC +ATGGAGATC +ATGGACTCG +ATGGAACGA +ATGCTTCAT +ATGCTCGCT +ATGCGACGT +ATGCCGTAG +ATGAGTTCG +ATGACTATC +ATGACCGAC +ATCTTATGC +ATCTTACTA +ATCTATCAG +ATCGTGTAC +ATCGTCTGA +ATCGGCATG +ATCGCGAGC +ATCGCAACG +ATCGATGCT +ATCGAATAG +ATCCTTCTG +ATCCTGCGT +ATCCGCACT +ATCCATTAC +ATCCAAGCA +ATCAGATCA +ATCACACAT +ATCAACGTC +ATCAACCGA +ATATTGAGT +ATATTCGTC +ATATTACAG +ATATCTTGA +ATATCGCAT +ATATCAATC +ATAGTCCTG +ATAGGTCTA +ATAGCTGAC +ATAGCGGTA +AGTTCGCTG +AGTTACAGC +AGTTAACTA +AGTGCAATC +AGTCTGGTA +AGTCTGAGC +AGTCTACAT +AGTCGAACT +AGTCCATCG +AGTCATTCA +AGTATCCAG +AGTAGACTG +AGTAATCGA +AGTAAGTGC +AGGTTGGCT +AGGTTCTAG +AGGTGTTCA +AGGTGCCAT +AGGTCTGAT +AGGTCGTAC +AGGTCAGCA +AGGCTTATC +AGGCTATGA +AGGCCGACG +AGGCCAAGC +AGGCAGGTC +AGGCAAGAT +AGGAGCAGT +AGGACCGCT +AGGAATTAC +AGCTTGGAC +AGCTTAAGT +AGCTACACG +AGCGTTACG +AGCGGTGCA +AGCGGAGTC +AGCGGACGA +AGCGCGCTA +AGCGATAGC +AGCGACTCA +AGCCTCTAC +AGCCGTCGT +AGCATGATC +AGCACTTCG +AGCACGGCA +AGATTCTGA +AGATTAGAT +AGATGATAG +AGATATGTA +AGATACCGT +AGAGTGCGT +AGAGCCGAT +AGACTCACT +ACTTGCCTA +ACTTGAGCA +ACTTCTAGC +ACTTCGACT +ACTTAGTAC +ACTGTTGAT +ACTGTAACG +ACTGGTATC +ACTGACGTC +ACTGAAGCT +ACTCTGATG +ACTCCTGAC +ACTCCGCTA +ACTCAACTG +ACTATTGCA +ACTAGGCAG +ACTACGCGT +ACTAATACT +ACGTTCGTA +ACGTGTGCT +ACGTGTATG +ACGTGGAGC +ACGTCTTCG +ACGTCAGTC +ACGGTCTCA +ACGGTCCGT +ACGGTACAG +ACGGCGCTG +ACGCTGCGA +ACGCGTGTA +ACGCGCCAG +ACGATGTCG +ACGATGGAT +ACGATCTAC +ACGAGCTGA +ACGAGCATC +ACGAATCGT +ACGAACGCA +ACCTTGTAG +ACCTGTTGC +ACCTGTCAT +ACCTCGATC +ACCTAGGTA +ACCTACTGA +ACCTAATCG +ACCGTAGCA +ACCGGTAGT +ACCGGCTAC +ACCGCTTCA +ACATTGTGC +ACATTCTCG +ACATGGCTG +ACATGACGA +ACATATGAT +ACATATACG +ACAGCGTAC +ACACTTGCT +ACACTATCA +ACACGCATG +ACACCAGTA +ACACCAACT +ACACATAGT +ACACACCTA diff --git a/seqspec_templates/bd_seqspec.yml b/seqspec_templates/bd_seqspec.yml new file mode 100644 index 0000000..729c0de --- /dev/null +++ b/seqspec_templates/bd_seqspec.yml @@ -0,0 +1,202 @@ +seqspec_version: 0.3.0 +assay_id: BD-Rhapsody-EB +name: BD-Rhapsody-EB +doi: https://scomix.bd.com/hc/en-us/articles/6990647359501-Rhapsody-WTA-Demo-Datasets-with-Enhanced-Cell-Capture-Beads +date: 31 August 2022 +description: BD Rhapsody WTA is a nanowell-based commercial system that uses a split-pool + (Enahnced Beads-v2) approach to generate oligos on magnetic beads. +modalities: +- rna +lib_struct: https://teichlab.github.io/scg_lib_structs/methods_html/BD_Rhapsody.html +sequence_protocol: Illumina +sequence_kit: [] +library_protocol: [] +library_kit: [] +sequence_spec: +- !Read + read_id: R1 + name: Read 1 + modality: rna + primer_id: truseq_r1 + min_len: 1 + max_len: 250 + strand: pos +- !Read + read_id: R2 + name: Read 2 + modality: rna + primer_id: truseq_r2 + min_len: 1 + max_len: 250 + strand: neg +library_spec: +- region_id: rna + region_type: rna + name: rna + sequence_type: joined + sequence: AATGATACGGCGACCACCGAGATCTACACTCTTTCCCTACACGACGCTCTTCCGATCTNNNNNNNNNGTGANNNNNNNNNGACANNNNNNNNNXXXXXXXXXXAGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNNNATCTCGTATGCCGTCTTCTGCTTG + min_len: 169 + max_len: 366 + onlist: null + regions: + - region_id: illumina_p5 + region_type: illumina_p5 + name: illumina_p5 + sequence_type: fixed + sequence: AATGATACGGCGACCACCGAGATCTACAC + min_len: 29 + max_len: 29 + onlist: null + regions: [] + - region_id: truseq_r1 + region_type: truseq_read1 + name: truseq_r1 + sequence_type: fixed + sequence: TCTTTCCCTACACGACGCTCTTCCGATCT + min_len: 29 + max_len: 29 + onlist: null + regions: [] + - region_id: vb + region_type: linker + name: vb + sequence_type: onlist + sequence: '' + min_len: 0 + max_len: 3 + onlist: + file_id: vb_onlist.txt + filename: vb_onlist.txt + filetype: '' + filesize: 0 + url: '' + urltype: local + md5: '' + regions: [] + - region_id: cls1 + region_type: barcode + name: cls1 + sequence_type: onlist + sequence: NNNNNNNNN + min_len: 9 + max_len: 9 + onlist: + file_id: bd_cls1.txt + filename: bd_cls1.txt + filetype: 'txt' + filesize: 0 + url: https://raw.githubusercontent.com/GilbertHan1011/precellar/refs/heads/main/seqspec_templates/onlist/bd_cls1.txt + urltype: https + md5: '' + regions: [] + - region_id: linker1 + region_type: linker + name: linker1 + sequence_type: fixed + sequence: GTGA + min_len: 4 + max_len: 4 + onlist: null + regions: [] + - region_id: cls2 + region_type: barcode + name: cls2 + sequence_type: onlist + sequence: NNNNNNNNN + min_len: 9 + max_len: 9 + onlist: + file_id: bd_cls2.txt + filename: bd_cls2.txt + filetype: 'txt' + filesize: 0 + url: https://raw.githubusercontent.com/GilbertHan1011/precellar/refs/heads/main/seqspec_templates/onlist/bd_cls2.txt + urltype: https + md5: '' + regions: [] + - region_id: linker2 + region_type: linker + name: linker2 + sequence_type: fixed + sequence: GACA + min_len: 4 + max_len: 4 + onlist: null + regions: [] + - region_id: cls3 + region_type: barcode + name: cls3 + sequence_type: onlist + sequence: NNNNNNNNN + min_len: 9 + max_len: 9 + onlist: + file_id: bd_cls3.txt + filename: bd_cls3.txt + filetype: 'txt' + filesize: 0 + url: https://raw.githubusercontent.com/GilbertHan1011/precellar/refs/heads/main/seqspec_templates/onlist/bd_cls3.txt + urltype: https + md5: '' + regions: [] + - region_id: umi + region_type: umi + name: umi + sequence_type: random + sequence: XXXXXXXX + min_len: 8 + max_len: 8 + onlist: null + regions: [] + - region_id: polyT + region_type: poly_T + name: polyT + sequence_type: random + sequence: X + min_len: 1 + max_len: 98 + onlist: null + regions: [] + - region_id: cdna + region_type: cdna + name: cdna + sequence_type: random + sequence: X + min_len: 1 + max_len: 98 + onlist: null + regions: [] + - region_id: truseq_r2 + region_type: truseq_read2 + name: truseq_r2 + sequence_type: fixed + sequence: AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC + min_len: 34 + max_len: 34 + onlist: null + regions: [] + - region_id: sample_index + region_type: index7 + name: sample_index + sequence_type: onlist + sequence: NNNNNNNN + min_len: 8 + max_len: 8 + onlist: + file_id: sample_index_onlist.txt + filename: sample_index_onlist.txt + filetype: '' + filesize: 0 + url: '' + urltype: local + md5: '' + regions: [] + - region_id: illumina_p7 + region_type: illumina_p7 + name: illumina_p7 + sequence_type: fixed + sequence: ATCTCGTATGCCGTCTTCTGCTTG + min_len: 24 + max_len: 24 + onlist: null + regions: [] \ No newline at end of file