Comments (3)
Yes, all you would need to do is use your PacBio HiFi reads to build your BWT. All of the construction commands provided (e.g. https://github.com/holtjma/fmlrc/wiki/Converting-to-the-fmlrc-RLE-BWT-format) should work "as is" to do that, just replace the usual r1 & r2 from short reads with just the single (or perhaps multiple) FASTQ file for the PB dataset.
Once the MSBWT from the PB data is built, you just follow the normal correction process (granted, you may want to experiment a bit with some parameters like the k-mer sizes). Let me know if you have any more questions about this!
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Thanks. I will give it a try and report the results.
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closing due to inactivity, feel free to reopen if you have issues
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Related Issues (20)
- Comment on % Pacbio sequences corrected ? HOT 3
- Segmentation fault: 11 HOT 6
- FMLRC (Or Ropebwt) not working correctly HOT 8
- does RNA long reads suit for correction? HOT 1
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- correcting low cov reads from heterozygous genomes HOT 5
- Error corrupted size vs. prev_size HOT 6
- How to generate RLE BWT format for paired-end illumina data HOT 2
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- iterated times matter with the results? HOT 4
- Index no output HOT 9
- [fmlrc-convert] ERROR - unexpected symbol in input: char: " ", hex: "20" HOT 2
- About short reads: insert size and type HOT 3
- Erronneous all-adenine contigs introduced HOT 2
- ../fmlrc-convert: No such file or directory HOT 3
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- Q: multiple round of flmrc2? HOT 3
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