bio

Dart Package for Bioinformatics.

USAGE

SeqIO

  • convert fastq into fasta

    bio seq --input ./data/seq.fq --output ./data/seq.fa
    
  • format fasta with max number of characters per line

    bio seq --input ./data/seq.fq --output ./data/seq_formated.fa --fasta-line-length 20
    
  • subset records with list of names

    bio seq --input ./data/seq.fq --output ./data/seq_subset.fa --filter-names ./data/name.list
    
  • subsamples N records

    bio seq --input ./data/seq.fq --output ./data/seq_sampled.fa --sample 2 --sample-seed 123
    
  • trim DNA records

    bio seq --input ./data/seq.fq --output ./data/seq_sample.fa --trim-start 6 --trim-end 3
    

Phylo

Libraries

bio
phylo
seq
utils