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bsbdenovo-examples [2017/11/22 02:11]
telatina
bsbdenovo-examples [2017/11/22 02:13] (current)
telatina
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 <​code>​ <​code>​
 canu -d Assembly -p Ecoli genomeSize=5m useGrid=false -nanopore-raw nanopore-reads.fastq canu -d Assembly -p Ecoli genomeSize=5m useGrid=false -nanopore-raw nanopore-reads.fastq
 +</​code>​
 +
 +==== Mixed assembly ====
 +Here some results from the Illumina + Nanopore assembly. The "​nanopore only" assembly has been made with CANU, while the other two with SPAdes. It will be interesting to check the //​correctness//​ of the nanopore only, also in term of single base errors.
 +<​code>​
 +file                format ​ num_seqs ​   sum_len ​   min_len ​   avg_len ​   max_len ​    N50
 +illumina+nanopore ​  ​FASTA ​       57  4,​603,​798 ​       128   ​80,​768.4 ​ 4,​137,​400 ​  ​4,​137,​400
 +illumina_only ​      ​FASTA ​      ​156 ​ 4,​540,​659 ​       128   ​29,​106.8 ​   434,​834 ​    ​141,​160
 +nanopore_only ​      ​FASTA ​        ​1 ​ 4,​507,​919 ​ 4,​507,​919 ​ 4,​507,​919 ​ 4,​507,​919 ​  ​4,​507,​919
 </​code>​ </​code>​