hello Every one,
I have got another serious problem, when I was running bowtie2 align for paired end reads I have got an error which are mentioned bellow:
[cdac@nbri bowtie2-2.1.0]$ ./bowtie2-align -x tair10ref -1 /storage/home/cdac/raghav/sratoolkit.2.3.2-4-centos_linux64/bin/LIBSG306_R1_filtered.fastq -2 /storage/home/cdac/raghav/sratoolkit.2.3.2-4-centos_linux64/bin/LIBSG306_R2_filtered.fastq -S input.sam
Error, fewer reads in file specified with -1 than in file specified with -2 terminate called after throwing an instance of 'int' Aborted.
my read1 fastq file is lesser in size as compair to read2, As per as I am getting here it is just because of unequal reads in in both fastq files.
But, what is best possible way to over come this problem???? is there any technique or syntax or tools which could help me out.