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496 bytes added
, 23:52, 23 March 2010
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| Karma is top secret. Shh! | | Karma is top secret. Shh! |
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| + | * Download |
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| To get a bootleg copy go to [http://www.sph.umich.edu/csg/pha/karma/download/ Karma Download] | | To get a bootleg copy go to [http://www.sph.umich.edu/csg/pha/karma/download/ Karma Download] |
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| + | * Command line |
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| + | * File strucutre |
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| + | Color space mapping needs 6 files, and base space mapping needs 5 files (only need to use 1 reference genome). |
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| + | Ue color space as an example, and say we use NCBI36.fa as reference genome: |
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| + | basespace.umfa => NCBI36.bs.umfa |
| + | colorspace.umfa => NCBI36.cs.umfa |
| + | colorspace.umwhr => NCBI36.cs.12.umwhr |
| + | colorspace.umwhl => NCBI36.cs.12.umwhl |
| + | colorspace.umwihi => NCBI36.cs.12.umwihi |
| + | colorspace.umwiwp => NCBI36.cs.12.umwiwp |
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− | Other links: | + | * Other useful links: |
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| [http://www.broadinstitute.org/files/shared/mpg/nextgen2010/nextgen_li.pdf Introduction of BWA usage] | | [http://www.broadinstitute.org/files/shared/mpg/nextgen2010/nextgen_li.pdf Introduction of BWA usage] |