Difference between revisions of "Re-sequencing"
From Crop Genomics Lab.
Sangrea Shim (Talk | contribs) (Created page with "'''bwa pipe''' '''bowtie pipe''' '''variation discovery'''") |
|||
| Line 2: | Line 2: | ||
| − | ''' | + | '''bowtie2 pipe''' |
| − | + | 1. Make bowtie index | |
| − | + | {| class="wikitable" | |
| + | |- | ||
| + | | bowtie2-build reference.fa reference.fa | ||
| + | |} | ||
| + | {| class="wikitable" | ||
| + | |- | ||
| + | | bowtie2-align -p num_threads -x reference_index -1 paired_1 -2 paired_2 -S sam_output | ||
| + | |} | ||
| + | |||
'''variation discovery''' | '''variation discovery''' | ||
Revision as of 04:04, 27 May 2014
bwa pipe
bowtie2 pipe
1. Make bowtie index
| bowtie2-build reference.fa reference.fa |
| bowtie2-align -p num_threads -x reference_index -1 paired_1 -2 paired_2 -S sam_output |
variation discovery
