Re: [Nelsonlab-analysis] BAMs for Variant Calling

[Jordan M. <jme...@uc...>]

Kevin,

Pileups from our pipeline are available from here. We are still debugging,
so please let me know how the data looks.

/home/seqware/datasets/experiments/1519/U08/pileup

Jordan


On Sun, Feb 21, 2010 at 8:35 PM, Jordan Mendler <jme...@uc...> wrote:

> Jobs are running
>
>
> --------------------
> Note to self:
>
> bin/pegasus-run.sh workflows/HumanGenomicVariant.ftl
> config/HumanGenomicVariant.ini  /tmp/variantnew.dax
> --experiment_name=1518_U08_neck_tumor
> --experiment_bam_inputs=1519_whole_genome_bfast_alignment/nhomer_bfast_alignment_reports-2010-2-02/bam/bfast.susan_20091217_2_50mer_only.bam
> --experiment_directory=experiments/1519/U08
>
> bin/pegasus-run.sh workflows/HumanGenomicVariant.ftl
> config/HumanGenomicVariant.ini  /tmp/variantnew.dax
> --experiment_name=1518_normal_blood
> --experiment_bam_inputs=1519_whole_genome_bfast_alignment/nhomer_bfast_alignment_reports-2010-2-02/bam/bfast.tomoe_20091222_2_50mer_only.bam
> --experiment_directory=experiments/1519/U08