Many commands past this point are computationally intensive. You should run them through an idev shell or by qsub. We recommend idev for the tutorial. | Code Block |
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| title | Example command to start an idev shell |
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| idev -m 60 -q development -A CCBBUT-2015-05-18 |
| Code Block |
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| language | bash |
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| title | Commands to be executed in order... |
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| samtools view -b -S -o SRR030257.bam SRR030257.sam
samtools sort SRR030257.bam SRR030257.sorted
samtools index SRR030257.sorted.bam |
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| This is a really common sequence of commands, so you might want to add it to your personal cheat sheet. |
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