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1 #!/bin/bash
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2 set -e;
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3
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4 #variables
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5 mkdir -p scripts/statistics; #create directory if it doesn't exist
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6
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7 echo "Calculation of statistics started."
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8
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9 #get statistics about mapped and unmapped reads for every contig
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10
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11 idxstats_bam_file ()
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12 {
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13 for ARG in "$@";
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14 do
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15 samtools idxstats bam/aln_cleaned_sorted_deduplicated_${ARG}_male.bam >scripts/statistics/stat_${ARG} &
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16 done;
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17 }
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18
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19 idxstats_bam_file mother father daughter son;
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20
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21 wait;
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22 echo "Idxstats successfully created."
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23
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24
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25
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