ghuls
Bioinformatician in Laboratory of Computational Biology (part of KU Leuven Center for Human Genetics and the VIB Center for Brain and Disease Research.).
@aertslab
Pinned Repositories
create_cisTarget_databases
Create cisTarget databases
install_aspera_connect
Install latest version of Aspera Connect and show example how to use it for downloading sequening data.
popscle_helper_tools
Helper tools for popscle
single_cell_toolkit
Tools for correcting single cell barcodes for various scATAC-seq techniques and creating fragment files and spltting BAM files per cluster.
cluster-buster
moreutils-parallel
Improve parallel of moreutils (http://joeyh.name/code/moreutils/)
multigrep
Grep for multiple patterns at once in one or more files and allow grepping in certain columns only.
polars_streaming_csv_decompression
Polars IO plugin for reading compressed CSV/TSV files in a streaming fashion
ppx2
Windows xargs clone: PPX2
re7zip
7zip version capable of downloading files from archives on HTTP servers
ghuls's Repositories
ghuls/polars_streaming_csv_decompression
Polars IO plugin for reading compressed CSV/TSV files in a streaming fashion
ghuls/cluster-buster
ghuls/polars
Fast multi-threaded DataFrame library in Rust and Python
ghuls/arrow-rs
Official Rust implementation of Apache Arrow
ghuls/bcftools
This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html
ghuls/bigtools
ghuls/biobear
Work with bioinformatic files using Arrow, Polars, and/or DuckDB
ghuls/cellsnp-lite
Efficient genotyping bi-allelic SNPs on single cells
ghuls/coreutils
Cross-platform Rust rewrite of the GNU coreutils
ghuls/d4-format
The D4 Quantitative Data Format
ghuls/dragonnfruit
A method for analyzing scATAC-seq experiments.
ghuls/exon
Exon is an OLAP query engine specifically for biology and life science applications.
ghuls/frawk
an efficient awk-like language
ghuls/genomic_ranges
enomic ranges: PyRanges-like functionality using Polars dataframes instead of Pandas dataframes
ghuls/gtars
Performance-critical tools to manipulate, analyze, and process genomic interval data. Primarily focused on building tools for geniml - our genomic machine learning python package.
ghuls/hck
A sharp cut(1) clone.
ghuls/jefscheepers_toolbox
A variety of tools for my own use
ghuls/lda
Topic modeling with latent Dirichlet allocation using Gibbs sampling
ghuls/maturin
Build and publish crates with pyo3, rust-cpython and cffi bindings as well as rust binaries as python packages
ghuls/mrpowers-benchmarks
MrPowers benchmarks for Pandas, Dask, Vaex, Polars, Spark and Julia
ghuls/noodles
Bioinformatics I/O libraries in Rust
ghuls/oxbow
Read specialized NGS formats as data frames in R, Python, and more.
ghuls/plda
PLDA: Parallel Latent Dirichlet Allocation in C++
ghuls/polars-feedstock
A conda-smithy repository for polars.
ghuls/pyfasta
fast, memory-efficient, pythonic (and command-line) access to fasta sequence files
ghuls/rust-htslib
This library provides HTSlib bindings and a high level Rust API for reading and writing BAM files.
ghuls/rustybam
bioinformatics toolkit in rust
ghuls/TrimGalore
A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data
ghuls/vireo
Demultiplexing pooled scRNA-seq data with or without genotype reference
ghuls/vmtouch
Portable file system cache diagnostics and control