Robert Vaser
Robert Vaser
Are there maybe sequences with identical names (paired ends might have equal names up to the first white space)?
There should be an error regarding mismatched read lengths if there are two or more sequences with the same name (meaning each sequence name in a file should be unique...
I'll see if I can add a easier way to process paired ends.
Hi Juan, do the reads in the FASTQ file have the updated names as in the SAM file? Best regards, Robert
I would advise at least 2 times PacBio and at least 1 time Illumina polishing. Best regards, Robert
Hi Antoine, that error is quite intriguing. Are you by any chance running racon on a server with Slurm or something similar? Did you check that all sequences have unique...
Do you mind sending me your data so I can investigate locally (contigs and reads)? I have no idea how this error could occur, probably some undefined behaviour.
If you are willing you can help me debug it without sending me the data (it might even be faster). If so, please follow the following instructions: https://github.com/isovic/racon/issues/77#issuecomment-400757031.
Hello Zamin, here it is: https://github.com/lbcb-sci/racon/tree/library. If you want to see an example how to integrate it check out de novo assembler https://github.com/lbcb-sci/raven. Just note that the library uses a...
Hello, can you please verify which version you are using with `racon --version`? Also, please paste commands which produced the .sam file. Best regards, Robert