Mercurial > repos > eiriche > bsmap
annotate README.txt @ 33:91a4092971bc draft default tip
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| author | eiriche |
|---|---|
| date | Mon, 03 Dec 2012 03:10:42 -0500 |
| parents | |
| children |
| rev | line source |
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| 33 | 1 BSMAP 2.6 Wrapper |
| 2 Written by Eugen Eirich @ Institute of Molecular Biology Mainz | |
| 3 Contact: e.eirich@imb-mainz.de | |
| 4 | |
| 5 1. Dependencies | |
| 6 To use the wrapper, please install BSMAP 2.6 and the Samtools package manually to your dependencies directory. | |
| 7 | |
| 8 2. Reference genomes | |
| 9 You can either use reference genomes from your history or built-in genomes. The built-in genomes are specified | |
| 10 in the file "bsmap_fasta.loc" in your tool-data directory. | |
| 11 | |
| 12 3. WIG parser | |
| 13 There is a WIG parser included in the repo, which converts the BSMAP Methylation Caller ouptut into WIG format. | |
| 14 To use this parser, please first path the file "methratio.py" in your BSMAP directory with the included file | |
| 15 "methratio.patch": | |
| 16 | |
| 17 /path/to/bsmap/methratio.py < methratio.patch |