Difference between revisions of "Re-sequencing"

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'''bowtie2 pipe'''
 
'''bowtie2 pipe'''
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1. Make bowtie index
 
1. Make bowtie index
 
{| class="wikitable"
 
{| class="wikitable"
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| bowtie2-build reference.fa reference.fa
 
| bowtie2-build reference.fa reference.fa
 
|}
 
|}
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2. Align
 
{| class="wikitable"
 
{| class="wikitable"
 
|-
 
|-

Revision as of 04:04, 27 May 2014

bwa pipe


bowtie2 pipe

1. Make bowtie index

bowtie2-build reference.fa reference.fa

2. Align

bowtie2-align -p num_threads -x reference_index -1 paired_1 -2 paired_2 -S sam_output

variation discovery