alekseyzimin
commented
5 years ago The RNAseq scaffolding brings minimal improvements to contig sizes, but it cab bring together the genes, With long-read assemblies RNAseq scaffolding will have minimal impact if any at all.
On Mon, Dec 3, 2018 at 4:23 AM Jose Francisco Sanchez-Herrero < notifications@github.com> wrote:
Dear @alekseyzimin https://github.com/alekseyzimin, I wonder if you have ever considered including within the masurca pipeline any software for the RNA scaffolding of the assembly generated. Sometimes, people assembling a genome will have RNAseq for the same specie so it could help to improve the assembly.
It could increase connectivity between contigs, improve N50 and using the Masurca modules you could later correct for missassemblies and fill gaps.
Thank you very much and really nice job with this assembler!
P.D. Looking forward to publishing the genome assembly we recently got using masurca.
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Dear @alekseyzimin, I wonder if you have ever considered including within the masurca pipeline any software for the RNA scaffolding of the assembly generated. Sometimes, people assembling a genome will have RNAseq for the same specie so it could help to improve the assembly.
It could increase connectivity between contigs, improve N50 and using the Masurca modules you could later correct for missassemblies and fill gaps.
Thank you very much and really nice job with this assembler!
P.D. Looking forward to publishing the genome assembly we recently got using masurca.