Hi:
I have GAII data - 36 bp single end reads.
I am using tophat following option
tophat -p 14 btie/indexes/hg18 sample1.fastq -o awb --segment-mismatches 3
Error: you must set the mean inner distance between mates with -r
I get the error forcing me to set -r option. These reads are single-end reads, why tophat wants me to set -r.
can I instead set -r 0?
any help appreciated.
thanks
Adrian
I have GAII data - 36 bp single end reads.
I am using tophat following option
tophat -p 14 btie/indexes/hg18 sample1.fastq -o awb --segment-mismatches 3
Error: you must set the mean inner distance between mates with -r
I get the error forcing me to set -r option. These reads are single-end reads, why tophat wants me to set -r.
can I instead set -r 0?
any help appreciated.
thanks
Adrian
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