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  • STAR alignment with multiple fq files

    I am trying to do RNAseq PE alignment using STAR. It works for one pair of fq files:

    $ STAR --runThreadN 30 --genomeDir /srv/STAR_genome/human/ --readFilesIn /../RNA4_1_R1.fastq.gz /../RNA4_1_R2.fastq.gz --readFilesCommand zcat

    However, I have multiple fq files for one sample and I need to align them into one sam file. When I tried to align all together, it returns 'Segmentation fault (core dumped)':

    $ STAR --runThreadN 30 --genomeDir /../STAR_genome/human/ --readFilesIn /../RNA4_1_R1.fastq.gz /../RNA4_1_R2.fastq.gz /srv/RNA4_2_R1.fastq.gz /../RNA4_2_R2.fastq.gz --readFilesCommand zcat
    Segmentation fault (core dumped)

    Could STAR deal with multiple pairs? What am I missing, pls?
    Last edited by graceqy; 10-07-2015, 02:05 PM.

  • #2
    Sorry I figured it out. But I don't know how to delete the post.

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    • #3
      Could you please share? Thank you

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