Daniel:Notebook/GenomeMiner/2013-10-3: Difference between revisions

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>Djacobse
(Created page with "=HL155= Back to Calendar ==Novoalign on HL155 (Started 10/02/2013)== '''Concatenate fq files into ...")
 
>Djacobse
 
(One intermediate revision by the same user not shown)
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'''Concatenate fq files into 1'''  
'''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
  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.

Latest revision as of 20:37, 7 October 2013

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.