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Tarmo Äijö's Projects

gpmicrobiome icon gpmicrobiome

A novel probabilistic approach to explicitly model overdispersion and sampling zeros in 16S rRNA sequencing data by considering the temporal correlation between nearby time points using Gaussian Processes

lux icon lux

Lux is an integrative hierarchical Bayesian model for analyzing any combination of BS-seq/oxBS-seq/TAB-seq/fCAB-seq/CAB-seq/redBS-seq/MAB-seq/etc data enabling accurate and unbiased quantification of different cytosine modifications (C/5mC/5hmC/5fC/5cac) and differential methylation at individual cytosines or loci, with or without replicates, while taking imperfect experimental parameters into account.

luxglm icon luxglm

LuxGLM is a method for quantifying oxi-mC species with arbitrary covariate structures from bisulphite based sequencing data. LuxGLM's probabilistic modeling framework combines a previously proposed hierarchical generative model of Lux for oxi-mC-seq data and a general linear model component to account for confounding effects.

numpyro icon numpyro

Probabilistic programming with NumPy powered by JAX for autograd and JIT compilation to GPU/TPU/CPU.

span icon span

A simple js tool to annotate Spatial Transcriptomics (ST) data

spav icon spav

A tool for visualizing Splotch results

splotch icon splotch

Splotch is a hierarchical generative probabilistic model for analyzing Spatial Transcriptomics (ST) data

zwog icon zwog

Grammar-based generation of structured cycling workouts

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