Crate mzdata[−][src]
Expand description
mzdata provides basic access to raw and processed mass spectrometry data formats in Rust.
The library currently supports reading:
- MGF files using
MGFReader
inmzdata::io::mgf
- mzML files using
MzMLReader
inmzdata::io::mzml
It also includes a set of representation layers for spectra in mzdata::spectrum
Example
use std::fs;
use mzdata::io::prelude::*;
use mzdata::io::mzml::MzMLReader;
let mut ms1_count = 0;
let mut msn_count = 0;
let mut reader = MzMLReader::open_path("./test/data/small.mzML").unwrap();
for scan in reader {
if scan.ms_level() == 1 {
ms1_count += 1;
} else {
msn_count += 1;
}
}
println!("MS1 Count: {}\nMSn Count: {}", ms1_count, msn_count);
assert_eq!(ms1_count, 14);
assert_eq!(msn_count, 34);
It also provides a sorted data structure for representing peak lists, PeakSet
and a trait implementing the majority of the logic, PeakCollection
.
Re-exports
pub use crate::io::mgf::MGFReader;
pub use crate::params::Param;
pub use crate::params::ParamDescribed;
pub use crate::params::ParamList;
Modules
The data structures and components that represent a mass spectrum and how we access their data.
Macros
Structs
Represent a single m/z coordinate with an intensity and an index. Nearly the most basic peak representation for peak-picked data.
Represent a single neutral mass coordinate with an intensity, a known charge and an index.
Represents a spectrum that hasn’t been processed yet, with only data arrays, potentially no discrete peaks.
Enums
Represents a unit of mass accuracy, and provides the means for measuring them.
Traits
A trait for an ordered container of mass spectral peaks. The trait
interoperates with CoordinateLike
.
A trait for providing a uniform delegated access to spectrum metadata
Type Definitions
A specialization of MzMLReaderType
for the default peak types, for common use.
A PeakSetVec
of CentroidPeak
items
ordered by m/z