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Karma is top secret. Shh!
Karma is top secret. Shh!
* Download
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]
* Command line
* File strucutre
Color space mapping needs 6 files, and base space mapping needs 5 files (only need to use 1 reference genome).
Ue color space as an example, and say we use NCBI36.fa as reference genome:
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
Other links:
* Other useful links:
[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]
