Comments (2)
mikolmogorov
commented on August 27, 2024
Hi,
The new version has a bit different read assembly algorithm, which is aimed for a faster assembly. Potentially, it could be confused by the presence of the large amount of "non-target" sequence - I think in your case that algorithm thinks that the assembly is complete too early.
We are now working on a more reliable version of the algorithm, which should be available soon. In the mean time you can try the latest version from master branch, it contain some updates that might fix your problem. What portion of the expected genome size are you currently getting? And could you also post (or send to me) the full abruijn.log?
from flye.
mikolmogorov
commented on August 27, 2024
Hi,
We've just pushed a new version into master, which in theory should assemble as many sequence, as the 1.0 version. Let me know if you have any issues with it.
from flye.
Related Issues (20)
- died with <Signals.SIGILL: 4 HOT 2
- Best parameters for ONT reads corrected with Illumina before assembly HOT 1
- Assembling ONT Multiple Chromosomes Form a Cluster HOT 1
- Inconsistency between assembly_graph.gfa and assembly.fasta HOT 2
- Too high memory consumption during disjointig deduplication HOT 2
- Select minimum read length HOT 1
- error SIGBUS HOT 1
- Flye stops after minimap2 without any error message HOT 3
- Option to display unassembled reads? HOT 1
- Is the final assembly function of the number of sequences ? HOT 6
- Is the name of the first contig in assembly.fasta always supposed to be contig_1? HOT 3
- Using fly to detect contamination in a pure culture? HOT 1
- Flye install fails with Python 3.12 HOT 2
- Command '['flye-modules', 'assemble', '--reads' HOT 2
- Better assembly with partial reads than full dataset HOT 2
- Positive and Negative Sense concatenating together for each contig HOT 16
- Flye output only 1 contig HOT 2
- Inclusion of reads <5000 results in increased fragmentation of assembly HOT 2
- How does Flye resolve 'unbridged' repeats? HOT 3
- No disjointigs were assembled(WARNING: No overlaps found - unable to estimate parameters)
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