Comments (4)
iminkin
commented on September 21, 2024
Hi,
How do you extract SNV from the blocks?
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Alice-yyt
commented on September 21, 2024
Hi,
How do you extract SNV from the blocks?
Thank you for your reply. Yes, I extracted SNVs from blocks.
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iminkin
commented on September 21, 2024
Could you please specify more details on how you do that? Do you parse the alignment?
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Alice-yyt
commented on September 21, 2024
Could you please specify more details on how you do that? Do you parse the alignment?
Thank you for your reply! Yes, I just parse the alignment and find snvs in every block. After that, I just extract kmer from reference genome which contains the snvs I find in blocks before. (my test is based on the COVID19 database). I am trying to distinguish the subtypes in the COVID19.
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Related Issues (20)
- free -w erro
- How would it deal with phased genomes?
- SibeliaZ/spoa/vendor/bioparser/include/bioparser/parser.hpp:124:19: error: 'gzFile_s' was not declared in this scope
- Installation issues HOT 2
- please include ##sequence-region pragmas in blocks_coords output HOT 4
- more detailed description for output HOT 1
- Conda installation doesn't include maf_to_gfa1.py HOT 2
- support gzip'd input fasta HOT 1
- is it suitable for the very big genome? HOT 2
- Q on coverage, multi-genome alignment, and maf2synteny HOT 4
- (support oneTBB) fatal error: tbb/mutex.h: No such file or directory HOT 3
- Question about block_coords.gff output
- Unexpected output HOT 1
- PackagesNotFoundError: The following packages are not available from current channels: - sibeliaz HOT 4
- sibeliaZ outputs HOT 2
- # running issue
- Getting alignments after running with "-n"
- question about LCB determination
- SibeliaZ causes my Ubuntu session to close
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