I am going to run Tophat with RNA-seq dataset to observe alternative splicing
events. There is a parameter for Tophat: "Minimum length of read segment".
According to "implemented Tophat options", the description for "Minimum length
of read segment" is "Each read is cut up into segments, each at least this
long. These segments are mapped independently. The default is 25". The length
of my reads is 36bps, should I change this parameter based on the length of my
reads? How long should I input?
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