69 Open source projects that are alternatives of or similar to scCODA

Signac

Expression Weighted Celltype Enrichment. See the package website for up-to-date instructions on usage.

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scisorseqr is an R-package for processing of single-cell long read data and analyzing differential isoform expression across any two conditions

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Metacell - Single-cell mRNA Analysis

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Differential expression analysis for single-cell RNA-seq data.

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Probabilistic Programming in Python: Bayesian Modeling and Probabilistic Machine Learning with Aesara

A collection of statistical analysis tools for your Swift programs.

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Multiple Pairwise Comparisons (Post Hoc) Tests in Python

tGPLVM: A Nonparametric, Generative Model for Manifold Learning with scRNA-seq experimental data

Open-source Python library for statistical analysis of randomised control trials (A/B tests)

CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology

R package for DNA methylation analysis

Pipeline for initial analysis of droplet-based single-cell RNA-seq data

Jupyter notebooks with examples of statistical methods and analyses using R.

Manuscript for functional prediction of transcriptomic “dark matter” across species

Java dataframe and visualization library

🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transcriptomics and feature barcoding.

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Discrete Distributional Differential Expression

Multi-class confusion matrix library in Python

An online companion to the OSCA manuscript demonstrating Bioconductor resources and workflows for single-cell RNA-seq analysis.

This repository contains notes and projects of Data scientist track from dataquest course work.

Single-cell exploratory data analysis for RNA-Seq

Open-source framework to detect outliers in Elasticsearch events

Single-cell Orientation Tracing

No description or website provided.

Code for the empty droplet and cell detection project from the HCA Hackathon.

Simple datasets and notebooks for data visualization, statistical analysis and modelling - with write-ups here: http://projectosyo.wix.com/datadoubleconfirm.

There are C language computer programs about the simulator, transformation, and test statistic of continuous Bernoulli distribution. More than that, the book contains continuous Binomial distribution and continuous Trinomial distribution.

Miller is like awk, sed, cut, join, and sort for name-indexed data such as CSV, TSV, and tabular JSON

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