pilon
automated genome assembly improvement and variant detection tool
Command lineScience
Not tested on a device yet. What that means
Commands in the package
pilon
About pilon
From Debian's package description
Pilon is a software tool which can be used to:
- Automatically improve draft assemblies
- Find variation among strains, including large event detection
Pilon requires as input a FASTA file of the genome along with one or more BAM files of reads aligned to the input FASTA file. Pilon uses read alignment analysis to identify inconsistencies between the input genome and the evidence in the reads. It then attempts to make improvements to the input genome, including:
- Single base differences
- Small indels
- Larger indel or block substitution events
- Gap filling
- Identification of local misassemblies, including optional opening of new gaps
From Debian's description of the pilon package, under that package's license.
Dependencies
Depends on
default-jrejava-wrapperslibhtsjdk-javalibcommons-lang-javascala-library
Related apps
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- snippyrapid haploid variant calling and core genome alignmentCommand line
Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the pilon package, under that package's license.
- Description: Debian's description of the pilon package, under that package's license.
- Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
- Popularity: Debian Popularity Contest counts.
More in About the catalog.