I have a PB + nanopore assembly and 10X linked reads from the parents for trio binning, however I do not have the linked reads for the individual with PB and nanopore (I have it for his littermate -- long story). Would you recommend combining the paternal linked reads into a single fastq file (i.e., cat maternal_R1.fastq.gz paternal_R1_fastq.gz ; cat maternal_R2.fastq.gz paternal_R2_fastq.gz ) and running scaff10X on these merged data, or could you see this leading to misassemblies?
Hello and thank you for the excellent tool.
I have a PB + nanopore assembly and 10X linked reads from the parents for trio binning, however I do not have the linked reads for the individual with PB and nanopore (I have it for his littermate -- long story). Would you recommend combining the paternal linked reads into a single fastq file (i.e., cat maternal_R1.fastq.gz paternal_R1_fastq.gz ; cat maternal_R2.fastq.gz paternal_R2_fastq.gz ) and running scaff10X on these merged data, or could you see this leading to misassemblies?
Thanks, Dustin