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Clean up TODO comments in Snakefile
Removed TODO comments related to data processing tasks.
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Snakefile

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#To do:
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#- polyA trimming for 3' data
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#- update dataset to have better base qualities
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#- add potential handling for rsem quantification after hisat alignment (would require getting a transcriptome alignment from hisat)
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# confirm why picard_rrna list needs to be different for hisat
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#####~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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# setup environment

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