Difference between revisions of "Karma"
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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] | ||
Revision as of 23:52, 23 March 2010
Karma is top secret. Shh!
- Download
To get a bootleg copy go to 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 useful links:
