Entering edit mode
3.8 years ago
traditionalGuy
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60
SPAdes has "trusted contigs" option, but it's not really reference-based assembly. I know velvet has that option, but I don't find it user-friendly. Is there any other reliable tool for reference-based assembly.
reference based transcriptome or genome assembly?
Reference based genome assembly. Have edited the title. Thanks
not sure what kind of data you are working with (short read? long read?) but if memory serves I thought that Flye assembler could also do (some sort of) reference based.
Illumina around 300bp
See: Reference based assembly
https://www.sciencedirect.com/science/article/pii/S1672022918304376