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jpayne@69
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1 import pysam.utils
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jpayne@69
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2
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jpayne@69
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3 addreplacerg = pysam.utils.PysamDispatcher('samtools', 'addreplacerg')
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jpayne@69
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4 ampliconclip = pysam.utils.PysamDispatcher('samtools', 'ampliconclip')
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jpayne@69
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5 ampliconstats = pysam.utils.PysamDispatcher('samtools', 'ampliconstats')
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jpayne@69
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6 bam2fq = pysam.utils.PysamDispatcher('samtools', 'bam2fq')
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jpayne@69
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7 bamshuf = pysam.utils.PysamDispatcher('samtools', 'bamshuf')
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jpayne@69
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8 bedcov = pysam.utils.PysamDispatcher('samtools', 'bedcov')
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jpayne@69
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9 calmd = pysam.utils.PysamDispatcher('samtools', 'calmd')
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jpayne@69
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10 cat = pysam.utils.PysamDispatcher('samtools', 'cat')
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jpayne@69
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11 collate = pysam.utils.PysamDispatcher('samtools', 'collate')
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jpayne@69
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12 consensus = pysam.utils.PysamDispatcher('samtools', 'consensus')
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jpayne@69
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13 coverage = pysam.utils.PysamDispatcher('samtools', 'coverage')
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jpayne@69
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14 cram_size = pysam.utils.PysamDispatcher('samtools', 'cram-size')
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jpayne@69
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15 depad = pysam.utils.PysamDispatcher('samtools', 'depad')
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jpayne@69
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16 depth = pysam.utils.PysamDispatcher('samtools', 'depth')
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jpayne@69
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17 dict = pysam.utils.PysamDispatcher('samtools', 'dict')
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jpayne@69
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18 faidx = pysam.utils.PysamDispatcher('samtools', 'faidx')
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jpayne@69
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19 fasta = pysam.utils.PysamDispatcher('samtools', 'fasta')
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jpayne@69
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20 fastq = pysam.utils.PysamDispatcher('samtools', 'fastq')
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jpayne@69
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21 fixmate = pysam.utils.PysamDispatcher('samtools', 'fixmate')
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jpayne@69
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22 flags = pysam.utils.PysamDispatcher('samtools', 'flags')
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jpayne@69
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23 flagstat = pysam.utils.PysamDispatcher('samtools', 'flagstat')
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jpayne@69
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24 fqidx = pysam.utils.PysamDispatcher('samtools', 'fqidx')
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jpayne@69
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25 fqimport = pysam.utils.PysamDispatcher('samtools', 'import')
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jpayne@69
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26 head = pysam.utils.PysamDispatcher('samtools', 'head')
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jpayne@69
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27 idxstats = pysam.utils.PysamDispatcher('samtools', 'idxstats')
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jpayne@69
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28 index = pysam.utils.PysamDispatcher('samtools', 'index')
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jpayne@69
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29 markdup = pysam.utils.PysamDispatcher('samtools', 'markdup')
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jpayne@69
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30 merge = pysam.utils.PysamDispatcher('samtools', 'merge')
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jpayne@69
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31 mpileup = pysam.utils.PysamDispatcher('samtools', 'mpileup')
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jpayne@69
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32 pad2unpad = pysam.utils.PysamDispatcher('samtools', 'pad2unpad')
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jpayne@69
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33 phase = pysam.utils.PysamDispatcher('samtools', 'phase')
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jpayne@69
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34 quickcheck = pysam.utils.PysamDispatcher('samtools', 'quickcheck')
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jpayne@69
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35 reference = pysam.utils.PysamDispatcher('samtools', 'reference')
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jpayne@69
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36 reheader = pysam.utils.PysamDispatcher('samtools', 'reheader')
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jpayne@69
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37 reset = pysam.utils.PysamDispatcher('samtools', 'reset')
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jpayne@69
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38 rmdup = pysam.utils.PysamDispatcher('samtools', 'rmdup')
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jpayne@69
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39 samples = pysam.utils.PysamDispatcher('samtools', 'samples')
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jpayne@69
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40 sort = pysam.utils.PysamDispatcher('samtools', 'sort')
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jpayne@69
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41 split = pysam.utils.PysamDispatcher('samtools', 'split')
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jpayne@69
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42 stats = pysam.utils.PysamDispatcher('samtools', 'stats')
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jpayne@69
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43 targetcut = pysam.utils.PysamDispatcher('samtools', 'targetcut')
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jpayne@69
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44 tview = pysam.utils.PysamDispatcher('samtools', 'tview')
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jpayne@69
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45 version = pysam.utils.PysamDispatcher('samtools', 'version')
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jpayne@69
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46 view = pysam.utils.PysamDispatcher('samtools', 'view')
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jpayne@69
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47
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jpayne@69
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48 __all__ = [
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jpayne@69
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49 'addreplacerg', 'ampliconclip', 'ampliconstats',
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jpayne@69
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50 'bam2fq', 'bamshuf', 'bedcov', 'calmd', 'cat',
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jpayne@69
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51 'collate', 'consensus', 'coverage', 'cram_size',
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jpayne@69
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52 'depad', 'depth', 'dict', 'faidx', 'fasta',
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jpayne@69
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53 'fastq', 'fixmate', 'flags', 'flagstat', 'fqidx',
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jpayne@69
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54 'fqimport', 'head', 'idxstats', 'index',
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jpayne@69
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55 'markdup', 'merge', 'mpileup', 'pad2unpad',
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jpayne@69
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56 'phase', 'quickcheck', 'reference', 'reheader',
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jpayne@69
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57 'reset', 'rmdup', 'samples', 'sort', 'split',
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jpayne@69
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58 'stats', 'targetcut', 'tview', 'version', 'view',
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jpayne@69
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59 ]
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