bio 0.0.3 bio: ^0.0.3 copied to clipboard
Some useful command line utils written in Dart. For parsing and manipulating sequence records in various formats...
bio #
Dart Package for Bioinformatics.
USAGE #
SeqIO #
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convert fastq into fasta
bio seq --input ./data/seq.fq --output ./data/seq.fa
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format fasta with max number of characters per line
bio seq --input ./data/seq.fq --output ./data/seq_formated.fa --fasta-line-length 20
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subset records with list of names
bio seq --input ./data/seq.fq --output ./data/seq_subset.fa --filter-names ./data/name.list
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subsamples N records
bio seq --input ./data/seq.fq --output ./data/seq_sampled.fa --sample 2 --sample-seed 123
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trim DNA records
bio seq --input ./data/seq.fq --output ./data/seq_sample.fa --trim-start 6 --trim-end 3