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, 10:27, 1 June 2012
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| some_linux_host > qplot/bin/qplot | | some_linux_host > qplot/bin/qplot |
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− | The following parameters are available. Ones with "[]" are in effect:
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− | References : --reference [/data/local/ref/karma.ref/human.g1k.v37.umfa], | + | References : --reference [/net/fantasia/home/zhanxw/software/qplot/data/human.g1k.v37.fa], |
− | --dbsnp [/home/bingshan/data/db/dbSNP/dbSNP130.UCSC.coordinates.tbl], | + | --dbsnp [/net/fantasia/home/zhanxw/software/qplot/data/dbSNP130.UCSC.coordinates.tbl], |
− | --gccontent [/home/bingshan/data/db/gcContent/gcContent.hg37.w250.out] | + | --gccontent [/net/fantasia/home/zhanxw/software/qplot/data/human.g1k.w100.gc] |
| Create gcContent file : --create_gc [], --winsize [100] | | Create gcContent file : --create_gc [], --winsize [100] |
| Region list : --regions [], --invertRegion | | Region list : --regions [], --invertRegion |
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| Records to process : --first_n_record [-1] | | Records to process : --first_n_record [-1] |
| Lanes to process : --lanes [] | | Lanes to process : --lanes [] |
| + | Read group to process : --readGroup [] |
| + | Input file options : --noeof |
| Output files : --plot [], --stats [], --Rcode [] | | Output files : --plot [], --stats [], --Rcode [] |
| Plot labels : --label [], --bamLabel [] | | Plot labels : --label [], --bamLabel [] |