Projects

stable

data-analysis langelab

SQuAPP

R ★ 11 v0.3.0 public published

proteomics bioinformatics

R/Shiny web app for start-to-end quantitative proteomics analysis across protein, peptide, and PTM levels. Published in Bioinformatics (2022).

GitHub Docs App Paper Blog

data-analysis langelab

ProteoForge

Python ★ 5 v0.1.0 public published

proteomics proteoforms statistics

ProteoForge enables exploration of differential proteoforms from peptide-leve bottom-up proteomics data. Python package and Analysis pipeline for ProteoForge. Published in J. Proteome Res. (2026).

GitHub Analysis Paper Blog

data-analysis langelab

QuEStVar

Python ★ 2 v0.1.0 public published

proteomics statistics equivalence-testing

Python package for statistical equivalence testing of protein quantification across conditions. Published in J. Proteome Res. (2024).

GitHub Analysis PyPI Docs Paper Blog

metadata langelab

pxseek

Python ★ 3 v0.5.1 public na

proteomics metadata parser cli

Python CLI for querying, filtering, and retrieving ProteomeXchange dataset metadata with local caching.

GitHub PyPI Docs Blog

metadata langelab

PXAudit

Python ★ 2 v0.6.0 public na

proteomics metadata fair cli

Python CLI for auditing PRIDE study metadata with a FAIR ladder and quantification-readiness score.

GitHub Docs Blog

data-analysis langelab

HarmonizePy

Python ★ 1 v0.3.2 public na

batch-effect-correction harmonization multi-omics biostatistics

Pure-Python batch-effect harmonization toolkit for multi-omics data, validated against R HarmonizR, sva::ComBat, and limma.

GitHub Docs Blog

data-analysis langelab

pepVet

R ★ 2 v0.99.1 public planned

proteomics digestion-simulation peptides enzyme-selection bottom-up

R package for proteolytic digest simulation, peptide scoring, enzyme comparison, and prep workflow presets for bottom-up proteomics.

GitHub Blog

core-tooling personal

zebrac

Zig ★ 2 v0.6.2 public na

benchmarking hyperfine perf cli

Linux benchmarking CLI using perf_event_open, hardware counters, peak RSS, JSON output, and statistical comparison.

GitHub Blog

language-dev personal

z-toml

Zig ★ 5 v0.4.0 public na

toml parser cli library

TOML v1.1.0 parser and writer for Zig 0.16, with typed and dynamic APIs.

GitHub Blog

core-tooling personal

z-oci

Zig ★ 2 v0.7.2 public na

oci container-registry library

Pure Zig OCI and Docker Registry API v2 toolkit for reference parsing, OCI types, and registry authentication.

GitHub Blog

active

core-tooling personal

z-fasta

Zig ★ 6 v0.3.2 public planned

bioinformatics fasta cli

Zero-dependency FASTA indexer and extractor with SIMD scanning, memory-mapped IO, and samtools-compatible output.

GitHub Blog

data-analysis personal

loqculate

Python ★ 5 v0.4.0 public planned

proteomics calibration lod/loq cli library

Python package for LOD and LOQ estimation from mass-spectrometry calibration curves.

GitHub Blog

standards personal

mzValidate

Zig ★ 2 v0.1.10 public na

mass-spectrometry open-data validator cli mzML

Fast, zero-dependency validator for open proteomics formats, starting with mzML.

GitHub Blog

standards personal

mzarc

Zig ★ 2 v0.3.0 public na

mass-spectrometry mzML compression codec

Research codec for mzML-derived spectra, built in Zig with Python ingestion and benchmark tooling.

GitHub Blog

standards personal

z-xml

Zig v0.0.0 private na

xml parser standards library

Benchmark-led XML library for Zig 0.16, currently qualifying XML 1.0 UTF-8 readers with raw-name and namespace-aware profiles.

GitHub

wip

data-analysis langelab

XICGuard

Python v0.0.5 private na

proteomics xic quality-control validation plotting

CLI tool for validating extracted ion chromatograms (XICs), filtering reliable proteins, and interactive plot-based exploration.

GitHub Blog

data-analysis personal

Maskomancy

Python v0.1.0 private na

unsupervised-learning PCA Nipals missing-data proteomics

Missing-value-tolerant PCA for omics-scale matrices

GitHub Blog

core-tooling personal

z-fastq

Zig v0.0.12 private na

bioinformatics fastq cli

Lightning-fast, bounded-memory, workflow-ready FASTQ toolkit written in Zig.

GitHub Blog

early

core-tooling personal

z-peptide

Zig private na

proteomics peptides digestion decoy fasta

Planned Zig CLI and library for exact peptide provenance across user-supplied protein databases; no production artifact is implemented yet.

GitHub

language-dev personal

zigR

Zig ★ 2 v0.0.10 public na

r zig language-binding

A high-performance bridge for integrating Zig into R.

GitHub Blog

language-dev personal

zagplot

Zig v0.2.0 private na

plotting svg visualization graphics

Dependency-free, pure-Zig SVG plotting library and CLI for generating publication-quality vector graphics.

GitHub Blog

standards personal

mzBridge

Zig v0.0.10 private na

proteomics raw-data mzML conversion reverse-engineering

Lightning-fast raw data to mzML converter, built in Zig as a research prototype by reverse-engineering vendor Raw files.

GitHub Blog

standards personal

z-mzml

Zig private na

mass-spectrometry mzml parser library

Early-stage Zig library for reading, writing, and working with mzML files; its public API is not yet stable.

GitHub