Mercurial > repos > bjoern-gruening > bismark
comparison README @ 3:7eefe5d6eecd draft
reupload
author | bjoern-gruening |
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date | Tue, 25 Dec 2012 05:54:01 -0500 |
parents | 36d124f44c0a |
children | 427fb56f2e41 |
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2:371bb57ac729 | 3:7eefe5d6eecd |
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1 Bismark uses Bowtie or Bowtie2 to map the reads. | |
2 Create your reference index with bismark_genome_preparation in your | |
3 normal Bowtie2/Botwie index directory. | |
4 bismark_genome_preparation will create a Bisulfite_Genome folder directly in | |
5 your Bowtie2/Bowtie index directory. If you follow that approach you do not | |
6 need to specify or modify an extra *.loc file. | |
7 That wrapper will extract the path to the Bisulfite_Genome folder from | |
8 ./tool-data/bowtie2_indices.loc or ./tool-data/bowtie_indices.loc. |