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vpc-ccg / haslr

A fast tool for hybrid genome assembly of long and short reads
GNU General Public License v3.0
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Use preexisting contig assembly instead of minia #9

Open mason-linscott opened 4 years ago

mason-linscott commented 4 years ago

Would lit be possible to use a pre-existing contig assembly for input to HASLR similar to what has been implemented for DBG2OLC (https://www.sciencedirect.com/science/article/pii/S0888754318305603)?

jelber2 commented 4 years ago

There have been new commits to add pre-existing contig assemblies to the haslr workflow, but unfortunately, I haven't been able to get non-minia assemblies (ex: ABySS v.2 contig assemblies) to work. Is this correct @haghshenas, that only minia assemblies work with haslr_assemble at least as of commit 0123746af93a9b0d79eee969510d12a88a9d6af3 ?

HanKMU commented 4 years ago

Hello, I am questioning as well as the application of pre-existing contig to HASLR, is there any update information? Thanks!