How to obtain .seq in BIC-seq2.1.1
Well, first of all I have to admit that I'm a freshman to bioinformatics.
I'm exploring BIC-seq-perl_1.1.2. My question is that how to use the SAMgetUnique attached to obtain the uniquely mapped read. And does this format as chrosome #.seq? I even can't run the example data...
Thanks!
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John Wick •
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seq-seek •
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hello,you can use samtools motified by BICseq2:http://compbio.med.harvard.edu/BIC-seq/BICseq2/samtools-0.1.7a_getUnique-0.1.3.tar.gz and then input the command like :
[modifiedSamtools_dir]/samtools view -U bwa,output,N,N mybam.bammaybe this can help