This project serves two purposes. First, this is an exploration into a Paper. Second, I'm trying to learn Rust.
run mebyfrac <k> <fasta> where k is the kmer size and fasta is a fasta file
- HashMap is slow. Copy the array counting from kmer.py.
- how to build (
cargo build) - probably will need to make a per-os release
- Figure out crosscomp
- rustup target add x86_64-apple-ios
- rustup target add x86_64-apple-darwin
- https://wapl.es/rust/2019/02/17/rust-cross-compile-linux-to-macos.html
- Clean code
- I have some trash in there
- Better argparsing (e.g. a -h)
- Better output
- Single parsing for multiple kmers
| Class | g | C(R(g)) | C(g) | R(g) |
|---|---|---|---|---|
| 1 | AAA | - | TTT | - |
| 2 | AAT | ATT | TTA | TAA |
| 3 | TTG | CAA | AAC | GTT |
| 4 | CTT | AAG | GAA | TTC |
| 5 | ATA | - | TAT | - |
| 6 | ATC | GAT | TAG | CTA |
| 7 | ATG | CAT | TAC | GTA |
| 8 | ACA | - | TGT | - |
| 9 | TGA | TCA | ACT | AGT |
| 10 | CCA | TGG | GGT | ACC |
| 11 | GCA | TGC | CGT | ACG |
| 12 | TCT | - | AGA | - |
| 13 | GCT | AGC | CGA | TCG |
| 14 | AGG | CCT | TCC | GGA |
| 15 | CAC | - | GTG | - |
| 16 | CAG | CTG | GTC | GAC |
| 17 | CTC | - | GAG | - |
| 18 | CCC | - | GGG | - |
| 19 | GCC | GCC | CGG | CCG |
| 20 | GCG | - | CGC | - |
sum(F(g)) + sum(F(rg)) == 0.5
data/R_sphaeroides.fa GC% - 0.6878748050210077
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