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We did assembly by SPAdes with [[Data|Dataset 4]] raw data and used different subreads depths of [[Data|Dataset 5]] and [[Pacbio Data|Dataset 9]] to scaffold by SSPACE-longread.
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We did assembly by SPAdes with [[Data|Dataset 4]] raw data first, and then used different subreads depths of [[Data|Dataset 5]] and [[Pacbio Data|Dataset 9]] to scaffold by SSPACE-longread.
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We arbitrary chose 1-4 SMRT cells:<br> |
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We arbitrary chose 1-4 SMRT cells:<br> |
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Three SMRT cells: m120228_115504 + m120228_152936 + m120228_100807<br> |
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Three SMRT cells: m120228_115504 + m120228_152936 + m120228_100807<br> |
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Four SMRT cells: m120228_171636 + m120228_223624 + m120228_100807 + m120228_190630 <br> |
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Four SMRT cells: m120228_171636 + m120228_223624 + m120228_100807 + m120228_190630 <br> |
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spades.py -1 reads_1.fastq -2 reads_2.fastq -o output
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SSPACE-LongRead.pl -c contig.fasta -p filter_subreads.fasta -b output
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