Version Differences for HGAP
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(→Hierarchical genome-assembly process)
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(→Hierarchical genome-assembly process)
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| Line 13: | |||
| smrtpipe.py --params=HGAP.xml xml:input.xml | smrtpipe.py --params=HGAP.xml xml:input.xml | ||
| - | Step 2 : Reference Import | + | '''Import reference''' |
| - | 1. After execute HGAP Protocol, there will be generating a polished_assemble.fasta.gz in "data" folder. Take it as reference. | + | 1. After execute HGAP Protocol, there will be generating a polished_assemble.fasta.gz in "data" folder. Take it as reference. <br> |
| - | 2. Import the reference by SMRT portal, because I don't konw how to import references by command line. | + | 2. Import the reference by SMRT portal, because I don't konw how to import references by command line. <br> |
| - | 3. SMRT protal will generate a reference folder under /opt/smrtanalysis/common/userdata.d/references/XXXXXX. You can copy the whole folder to your working directory, or asign the path in the Quiver.xml | + | 3. SMRT protal will generate a reference folder under /opt/smrtanalysis/common/userdata.d/references/XXXXXX. You can copy the whole folder to your working directory, or asign the path in the Quiver.xml <br> |
| Step 3 : Prepare for Quiver | Step 3 : Prepare for Quiver | ||