Miniasm

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Description

Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by minimap) as input and outputs an assembly graph in the GFA format. Different from mainstream assemblers, miniasm does not have a consensus step. It simply concatenates pieces of read sequences to generate the final unitig sequences. Thus the per-base error rate is similar to the raw input reads.

Availability

Versions 0.2 and 0.3 are freely available to users.

miniasm-0.2
miniasm-0.3

Licence

The MIT License

Use

Initialize environment with command:

module add miniasm-0.3
miniasm

Documentation

miniasm --help

Program manager

meta@cesnet.cz

Homepage

https://github.com/lh3/miniasm