I aligned RNA sequenceing data to human genome using HISAT. To my surprised, the alignment rates were too low, about 75%. So, I want to know:
1) Why was the alignment rate (~75%) so low?
2) As for the RNA sequencing data of human tissue, which of alignment software is suitable between HISAT, TopHat2 and STAR?
Thanks a lot!
1) Why was the alignment rate (~75%) so low?
2) As for the RNA sequencing data of human tissue, which of alignment software is suitable between HISAT, TopHat2 and STAR?
Thanks a lot!
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