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determining SJ with SOAPsplice

hy guyz. im newbie to NGS data analysis and using SOAPaplice to determine SJ for paired end reads. I have successfuly built an index with all its 12 output files. However, I am unable to align my sequences as Im getting an error message 

**cannot open bwtCodeFile!**

can someone kindly help me to resolve this problem????

the command line I am using for this purpose is as follows:

/data/sata4/SOAPsplice-v1.10/bin/soapsplice -d /data/sata4/SOAPsplice-v1.10/indexsoap/soap_index -1 /data/sata4/SRR95_Qt_1P.fq -2 /data/sata4/SRR95_Qt_2P.fq -o soapsplice_align -f 2
alignment
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updated by Heath • Heath • written by blooming.daisy333 • blooming.daisy333

1 answer

I think you can solve it by append ".index" to your prefix of reference files "soap_index"

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written by Heath • Heath

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