Flye
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De novo assembler for single molecule sequencing reads using repeat graphs
`distutils.spawn.find_executable` is a deprecated function and it is recommended to use `shutil.which` instead. see https://peps.python.org/pep-0632/#migration-advice Note that `distutils` are no longer available in Python 3.12.
Howdy, My name is Per and I would first like to thank you for developing Flye! Anyway, I have been using Flye to assemble an *E. Coli* isolate from ONT...
Hello Mikhail, We upgraded our OS from CentOS7 to a fresh install of RedHat 9.4 on a new HDD, reinstalled miniconda, then installed flye into a new environment. Our assemblies...
I have a "raw" ONT bam file (de multiplexed with adaptors trimmed using ONT's new Dorado base caller) I wanted to to a quick assembly with flye but am running...
Hello Firstly thanks for making this great tool. I have used`Flye 2.9.3-b1797` to assemble ONT reads for a plant genome (assembly size 830 Mb). I installed Flye using bioconda. Before...
I did a fresh install of flye with micromamba. Python is 3.9. I get a core dump on the minimap2 step. Any suggestions? Thanks! less /Spawn/Isolates/LT001001/results_flye_correct/10-consensus/minimap.stderr [samfaipath] build FASTA index......
Dear Mikhail `contig_3` in `assembly_graph.gfa` is missing in `assembly.fasta`: ```shell $ grep ">" assembly.fasta >contig_1 >contig_2 ``` Preview of `assembly_graph.gfa`: ``` H VN:Z:1.0 S edge_1 TATTTTATGAAAGAGGTGATTTTTATGCCGAAAAGA... (54kb) dp:i:1494 S edge_2...
Hello sir, Long time fan and user of Flye, Abruijn, etc. I have three datasets: - PacBio HiFi - 90-95% accurate ultra-long ONT - Hi-C I know there are other...
The title says it all. I have high accuracy nanopore data with read N50 of >100 kb (representing >30-50X coverage) and I would like to try minimum overlaps of 25kb...
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De novo assembler for single molecule sequencing reads using repeat graphs