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  • per_ngs
    Junior Member
    • Apr 2011
    • 8
    #1

    RNASeq analysis using Erange

    Hi All,
    We are using Erange 4.0 to do analysis on a pair of human RNASeq data generated on Illumina HiSeq 2000. We are running runRNAPairedAnalysis.sh script, it has been running for over a week now and currently it is running getMrnaCounts.py. On command prompt it displays "marking GIDs"

    The RDS file of size 6.7 GB was generated using makeRdsFromBam from BAM file of size 5.3 GB. This data is for hsapiens genome.

    The configuration of the system on which the analysis is running is: Linux 16GB RAM and a quad core processor. We are running the analysis on a single thread, the CPU usage is at 100% and 9.7% of available RAM is being used.

    The question is, is it normal for Erange to run for this long with the dataset and system configuration described or are we doing something wrong?

    Greatly appreciate help in this matter.
    Thanks!
    Tags: erange, rnaseq
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