Robert Vaser
Robert Vaser
Hello, can you please paste the Racon command (+bwa/minimap2) you used after two iterations of Pilon? Best regards, Robert
Well the reason is that you are using long reads in Racon rounds and short reads in Pilon rounds. If you use erroneous long reads after accurate short reads, you...
Hi @jforero2020, how much does the BUSCO score decrease? Which sequencing technology reads do you have? Which mapper did you use? Best regards, Robert
Were the assemblies polished with anything else in between?
Hi Yu, error `overlap is not transmuted` means you run the command wrong. Run racon (or racon_wrapper) with `racon `. In your first command `racon -t 8 wtdbg_TE.fa TE_bowtie.sam TE.fq...
Can you check out what is the length of the biggest contig in TE_racon.fasta? If not, check out the file size, divide id by 3 and use that number instead...
Hi George, unfortunately Racon does not have this option. You could extract the region from the FASTA file, map your reads to it and then employ Racon. Best regards, Robert
Hello, as I see there is only a warning and the `Makefile` should been generated. Can you verify that please? Nothing much changed with zlib inclusion so I guess there...
Hi Dave, are you using the executable from bioconda or did you make a fresh git clone and compile it manually? Best regards, Robert
Run `grep "sse" /proc/cpuinfo` and check whether there is sse4.1 listed.