1 | <tool id="split_paired_reads" name="Split paired end reads" version="1.0.0"> |
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2 | <description></description> |
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3 | <command interpreter="python"> |
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4 | split_paired_reads.py $input $output1 $output2 |
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5 | </command> |
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6 | <inputs> |
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7 | <param name="input" type="data" format="fastqsanger" label="Your paired-end file" /> |
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8 | </inputs> |
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9 | <outputs> |
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10 | <data name="output1" format="fastqsanger"/> |
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11 | <data name="output2" format="fastqsanger"/> |
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12 | </outputs> |
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13 | <tests> |
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14 | <test> |
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15 | <param name="input" value="3.fastqsanger" ftype="fastqsanger"/> |
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16 | <output name="output1" file="split_pair_reads_1.fastqsanger" ftype="fastqsanger"/> |
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17 | <output name="output2" file="split_pair_reads_2.fastqsanger" ftype="fastqsanger"/> |
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18 | </test> |
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19 | </tests> |
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20 | <help> |
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21 | |
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22 | **What it does** |
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23 | |
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24 | Splits a single fastq dataset representing paired-end run into two datasets (one for each end). This tool works only for datasets where both ends have **the same** length. |
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25 | |
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26 | ----- |
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27 | |
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28 | **Input formats** |
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29 | |
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30 | A multiple-fastq file, for example:: |
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31 | |
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32 | @HWI-EAS91_1_30788AAXX:7:21:1542:1758 |
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33 | GTCAATTGTACTGGTCAATACTAAAAGAATAGGATCGCTCCTAGCATCTGGAGTCTCTATCACCTGAGCCCA |
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34 | +HWI-EAS91_1_30788AAXX:7:21:1542:1758 |
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35 | hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh`hfhhVZSWehR |
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36 | |
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37 | |
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38 | ----- |
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39 | |
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40 | **Outputs** |
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41 | |
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42 | One end:: |
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43 | |
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44 | @HWI-EAS91_1_30788AAXX:7:21:1542:1758/1 |
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45 | GTCAATTGTACTGGTCAATACTAAAAGAATAGGATC |
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46 | +HWI-EAS91_1_30788AAXX:7:21:1542:1758/1 |
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47 | hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh |
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48 | |
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49 | The other end:: |
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50 | |
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51 | @HWI-EAS91_1_30788AAXX:7:21:1542:1758/2 |
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52 | GCTCCTAGCATCTGGAGTCTCTATCACCTGAGCCCA |
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53 | +HWI-EAS91_1_30788AAXX:7:21:1542:1758/2 |
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54 | hhhhhhhhhhhhhhhhhhhhhhhh`hfhhVZSWehR |
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55 | |
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56 | </help> |
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57 | </tool> |
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