Comments (4)
Hi,
it is indeed a good idea to be able to directly load a bam file. We will implement this change and will get back to you once it is done.
from hapo-g.
Just to clarify, you can already use a BAM file you produced by using the hapog binary in the build directory. However, by using this approach, you won't be able to multithread the polishing since it is done in the Python script.
from hapo-g.
Hi,
we added an option to directly give a sorted bam file to Hapo-G with the '-b' flag.
from hapo-g.
Many Thanks! Very interesting. I will take a look!
from hapo-g.
Related Issues (20)
- Do you recommend to polish hifi assemble results (like hifiasm or hicanu results) ? HOT 2
- output, adding sequences from reads, and ratios? HOT 4
- UnicodeDecodeError: 'utf-8' codec can't decode byte 0xb1 HOT 6
- Conda install fails HOT 3
- Polish before or after Redundans HOT 1
- ModuleNotFoundError HOT 1
- Error with --threads 1 HOT 1
- Minimum coverage for correction? HOT 2
- PackageNotFoundError HOT 4
- How do I get a vcf file? HOT 2
- ERRORs when using newest version on conda HOT 1
- hapog introduce non-codon character in the polished sequence HOT 13
- Question: how HAPO-G handles N in reads? HOT 4
- Question: how about polishing a phased diploid genome assembly? HOT 2
- Memory issue HOT 5
- Explanation of hapog.changes HOT 1
- TypeError issue HOT 12
- long and short reads HOT 1
- Does HAPO-G correct ambiguous bases in fasta
- Error with --threads 1 - persisting HOT 4
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