User: Kevin Silverstein
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Posts by Kevin Silverstein
... Hi Galaxy Developers, This is regarding the wrapper for cuffdiff and the -c parameter for "Min alignment count". We noted that Galaxy's default value is set to 1000. In our experience, setting this parameter that high yields drastically different results from the ones obtained with the author's ...
Answer: A: About Mapping Quality
... Jeremy, This is not strictly correct. Tophat/bowtie don't report mapping quality values that are as meaningful as BWA, but there is some information in the mapping quality values tophat reports. Tophat yields 4 distinct values for its mapping quality values (you can do a "unique" count on the ma ...
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