Hi,all,
I'm new to next-generation sequencing,and I have a data set of paired-end reads of length 90 bp.I used bowtie to map the reads into the reference genome,but the result is not good.
Could anyone tell me if bowtie is fit for processing the 90 bp reads?Maybe I'll work with TopHat,but it seems to use bowtie to map reads and not works with bowtie2.
A lot of thanks.
I'm new to next-generation sequencing,and I have a data set of paired-end reads of length 90 bp.I used bowtie to map the reads into the reference genome,but the result is not good.
Could anyone tell me if bowtie is fit for processing the 90 bp reads?Maybe I'll work with TopHat,but it seems to use bowtie to map reads and not works with bowtie2.
A lot of thanks.
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