Daniel:Notebook/GenomeMiner/2013-10-3

From ZhangLabWiki
Jump to navigation Jump to search

HL155[edit]

Back to Calendar

Novoalign on HL155 (Started 10/02/2013)[edit]

Concatenate fq files into 1

cat s_2_1_Indx11.txt s_2_1_Indx12.txt s_2_1_Indx13.txt s_3_1_Indx10.txt s_3_1_Indx11.txt s_3_1_Indx12.txt > hl155_indx10to13.fq

Novoalign on V4S1

novoalign -d index_v4s1fullrevcomp.ndx -f ../../hl155_indx10to13.fq -F ILMFQ -r ALL -o SAM -o FULLNW > novo_v4s1.sam

This took forever and never finished.