-
If I have pretty deeply sequenced long reads and average depth illumina reads, would you recommend using metaspades with the --nanopore option or metaflye? I have deeply sequenced nanopore reads (7-9 GB gzipped) and Illumina reads (~2-3 GB gzipped). For long reads that do not overlap with many short reads, are they assembled separately into contitgs/scaffolds or are they removed in spades/metaspades? |
Beta Was this translation helpful? Give feedback.
Replies: 1 comment 1 reply
-
SPAdes is a short-read assembler and uses long reads to supplement short read assembly, it does not assemble the. You can read the details in hybridSPAdes article: https://academic.oup.com/bioinformatics/article/32/7/1009/1743807 |
Beta Was this translation helpful? Give feedback.
SPAdes is a short-read assembler and uses long reads to supplement short read assembly, it does not assemble the. You can read the details in hybridSPAdes article: https://academic.oup.com/bioinformatics/article/32/7/1009/1743807