rust-na

Introduction

DNA-inspired structs and functions in Rust, mostly for the author's practice.

Requirements

See Cargo.toml. This shouldn't be much of a concern when using Cargo, anyway.

At the moment, a nightly build is needed (for try_from). You can switch with rustup.

Instructions

With a "-i" flag, the executable will take a string of elements in "ACGT" and print out the protein sequence that the DNA codes for.

For instance:

cargo run -- -i CCATGTCGAAGTCGCTAAGCTCTCGTAGAAAATCGATTAGATAAATATATATATGCTGCTCGAGATCGA
      MSKSLSSRRKSIR
      MLLEI

If no flag option is passed, the executable will try to open the file(s) with the given name for reading.

cargo run gene.fna

TODO

fix file reading process to deal with standard (and possibly large) FASTA files intelligently

function to copy/mutate a BaseSeq with configurable insertion, deletion, and SNP rates.

sexual reproduction with crossover

comparison functions of sequences (e.g. total base numbers, "strength" (GC minus AT) or other combinations). can do di/tri-nucleotide frequency and correlation functions as well. this could help form metrics for sequence comparison.