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README.md

PUBS2014

This is the git repository for the pipeline created by the UCSF PUBS2014 class to analyze data generated in the EMPIRC-BC experements of ubiquitin.

the piple line takes raw fastq files generated on Illumina deep sequencing platforms, counts Ub alleles, scores allele fitness, and generates a heatmap of allele fitness

the usage for each script in a module is found in the read me of each module and in the methods section of our publication.

cheers

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