Daniel:Notebook/GenomeMiner/2013-10-9
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HL155 Novoalign (Started 10/3/2013)
V4S3
Pipeline
Build Index
novoindex index_v4s2fullrevcomp.ndx V4S2_fullrevcomp.fa
Novoalign
novoalign -d index_v4s2fullrevcomp.ndx -f ../../s_3_1_Indx12.txt -F ILMFQ -r ALL -o SAM -o FULLNW > novo_v4s2.sam