Lib.rs

SPDI 是一个用于获取基因组变异 SPDI 格式表示的 Rust 库和命令行工具。

作为命令行工具

git clone [email protected]:rkimoakbioinformatics/spdi.git
cd spdi
cargo build --release
# Add SPDI representation as OV_SPDI_IDS field in INFO of a VCF file.
./target/release/spdi -t <2bit file path> -f <VCF file path> 1>out.vcf 2>err.txt
# Get SPDI representation of a single variant.
./target/release/spdi -t <2bit file path> -v chr1:99092:C:CT

作为库

要添加

cargo add spdi
cargo add anyhow

要使用

use anyhow::Result;

fn example() -> Result<String> {
    let s = spdi::SPDI::new("path/to/2bit/file")?;
    let spdi_string = s.get_spdi_string("chr1", 99092, "C", "CT")?;
    println!("{}", spdi_string);
}

lib.rs:

示例

use anyhow::Result;

fn example() -> Result<String> {
    let s = spdi::SPDI::new("path/to/2bit/file")?;
    let spdi_string = s.get_spdi_string("chr1", 99092, "C", "CT")?;
    println!("{}", spdi_string);
}