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- Load tophat bam file from URL: [http://loving.corral.tacc.utexas.edu/bioiteam/tophat_cufflinks/|http://loving.corral.tacc.utexas.edu/bioiteam/tophat_cufflinks/]C1_R1_accepted_hits.bam
* - Load bwa bam file from URL: [http://loving.corral.tacc.utexas.edu/bioiteam/tophat_cufflinks/|http://loving.corral.tacc.utexas.edu/bioiteam/tophat_cufflinks/]bwa_genome/C1_R1.bam
Now, lets load another bam file output from the tophat run (remember, tophat calls bowtie for mapping). These are large file, so it may slow your computer down. Since we've already loaded C1_R1, let's load one from the C2 condition, say, C2_R1, to see genuine expression level changes. Go to gene regucalcin (remember, you can just type the gene name to get there) and see if it is differentially expressed between C1_R1 and C2_R1.
Keep this open to come back to, when we further explore differential expression results.
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