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20110201        Top        20110203       


Added some features for Céline's program

Project 'B'

  • end of markdup, now indexing and running the GATK for CountCovariates. I wanted to use --DBSNP=(...)/dbsnp_130_b36.rod but there is no "chr" prefix for the chromosome. So I created
    sed 's/\t/\tchr/' dbsnp_130_b36.rod > dbsnp_130_hg18.rod

wrote a tool to test whether a BAM file is sorted: . Asked for help on the samtools mailing list to improve the code. <html><script src=""></script></html>