Overview¶
General Overview of Workshop¶
Get computer with software and data up and running
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Map the appropriate reads
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Call peaks with MACS
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Examine peaks relative to known genomic features using CEAS
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Motif discovery with MEME
More Detailed Overview of Workshop Pipeline¶
Get proper resources for working on genome of interest
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Identify proper data on NCBI Short Read Archive
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Obtain in a format that will work for subsequent steps (ideally fastq)
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Extract the Gal4 reads based on barcode
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Map the reads
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Improve the mapping of the reads
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Preliminary view of mappings
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Peak calling with MACS
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Peaks relative to known genomic features with CEAS
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Filter additional regions
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Compare to published data
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Motif discovery with MEME