yanagiba
filter low quality Oxford Nanopore reads basecalled with Albacore
Command lineScience
Not tested on a device yet. What that means
Commands in the package
yanagiba
About yanagiba
From Debian's package description
Yanagiba is used to filter short or low quality Oxford Nanopore reads which have been basecalled with Albacore. It takes fastq.gz and an Albacore summary file as input. If no Albacore summary file is provided attempt to calculate mean qscore from directly from fastq file using NanoMath. Note: Calculated quality scores appear to be lower for reads called with Metrichor, you may need to lower your minqual setting in this case.
From Debian's description of the yanagiba package, under that package's license.
Dependencies
Depends on
python3-biopythonpython3-nanomathpython3-pandaspython3
Related apps
- ont-fast5-apisimple interface to HDF5 files of the Oxford Nanopore .fast5 file formatCommand line
- qcatdemultiplexing Oxford Nanopore reads from FASTQ filesCommand line
- yanosimread simulator nanopore DRS datasetsCommand line
- mcallerfind methylation in nanopore readsCommand line
- porechopadapter trimmer for Oxford Nanopore readsCommand line
- ardenspecificity control for read alignments using an artificial referenceCommand line
Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the yanagiba package, under that package's license.
- Description: Debian's description of the yanagiba package, under that package's license.
- Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
- Popularity: Debian Popularity Contest counts.
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