FengLabWkshopMay2015
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  • Getting started
  • Logging into your computer instance “in the cloud” (Windows version)
  • Logging into your computer instance “in the cloud” (NON-Windows version; for Mac and Linux)
  • Overview
  • Initial steps condensed for today
  • STEP# 1: Get proper resources for working on genome of interest
  • STEP #2: Acquire experimental data
  • Extract the Gal4 reads based on barcode
  • Mapping reads
  • Improving the mapping of the reads
  • Preliminary view of mappings
  • Peak Predictions with MACS
  • Peaks relative to known genomic features with CEAS
  • Optional: Look at reads and/or peaks in IGB or IGV or SeqMonk OR UCSC genome browser
  • Comparison to published data
  • Motif discovery with MEME
  • Sources
  • Going forward
  • Appendix: Help getting files on and off Amazon AWS EC2 instances
  • Appendix: Making Wiggle file Covering Genome
  • Appendix: Obtaining a BED of Telomere sequences
  • Appendix: Technical guide to the workshop
  • Appendix: Setting up a Mac for the workshop
  • Appendix: Setting up an Amzon EC2 instance for the workshop
FengLabWkshopMay2015
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© Copyright 2015, Wayne Decatur. Revision a40d4d02.

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