bio

Description:

bio

bio #
Functions and command line tools for biological computation written in Dart.




USAGE #


As a dart package

Add bio in pubspec.yaml
Run pub get



As a command line tool

Download binary from release. linux, mac and win are available.
Extract the binary file 7z e bio-xxx.7z
Run ./bio + subcommand



DOCUMENTATION #
eg, convert fastq into fasta, then subsamples 2 records and reverse complement the sequences.
bio seq --input ./data/seq.fq \
--output ./data/seq_sampled.fa \
--sample 2 --sample-seed 123 \
--reverse-complement
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Read the CMD documentation to find out more examples:
https://biodart.yech.xyz


Read the API documentation to find out more details:
https://pub.dev/documentation/bio


BENCHMARK #



tool
test IO time
test RC time




biodart
6.678
15.533


seqkit (Golang)
0.996
0.879


seqtk (C)
0.849
0.854