dcjones

hat-trie

An efficient trie implementation.

mk

make remade

fastq-tools

Small utilities for working with fastq sequence files.

coitrees

A very fast interval tree data structure

quip

Compressing next-generation sequencing data with extreme prejudice.

polee

Analyzing RNA-Seq with approximate likelihood

proseg

Probabilistic cell segmentation for in situ spatial transcriptomics

vanity

scRNA-Seq normalization for the vain

maxspin

Quantifying spatial information in spatial transcriptomics

PoleeClassifier.jl

AnnDatas.jl

Julia compatibility for the anndata python module

GatedLinearNetworks.jl

A gaussian gated linear networks implementation

Baysor

Bayesian Segmentation of Spatial Transcriptomics Data

BioAlignments.jl

Sequence alignment tools

bioconda-recipes

Conda recipes for the bioconda channel.

BioSequences.jl

Biological sequences for the julia language

Cronenberg.jl

Simulating spatial expression data

DecisionTree.jl

Julia implementation of Decision Tree (CART) and Random Forest algorithms

ecosystem-packages

Registry for scverse ecosystem packages (https://scverse.org/packages/#ecosystem)

gccontent-benchmark

Benchmarking different languages for a simple bioinformatics task (Counting the GC fraction of DNA in a FASTA file)

GCNN.jl

Group CNNs

GenomicFeatures.jl

Tools for genomic features in Julia.

IndexableBitVectors.jl

Fully indexable dictionaries - access/rank/select operations

IntervalTrees.jl

A data structure for efficient manipulation of sets of intervals

Muon.jl

Muon for Julia

pix2pix

Image-to-image translation with conditional adversarial nets

RSEM

RSEM: accurate quantification of gene and isoform expression from RNA-Seq data

seine-rs

A (rust)🦀 library and suite of tools for manipulating and processing the output of salmon, alevin, and alevin-fry 🐟

squidpy

Spatial Single Cell Analysis in Python

TiffImages.jl

Pure-Julia TIFF I/O with a focus on correctness 🧐