127 Open source projects that are alternatives of or similar to ANCOMBC

MaAsLin2: Microbiome Multivariate Association with Linear Models

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Rapid large-scale prokaryote pan genome analysis

CorBinian: A toolbox for modelling and simulating high-dimensional binary and count-data with correlations

A fast and scalable phylogenetic tree viewer for microbiome data analysis

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A collection of scripts and notes related to genomics and bioinformatics

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Collection of custom layers and utility functions for Keras which are missing in the main framework.

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Class Normalization for Continual Zero-Shot Learning

De novo assembly from Oxford Nanopore reads.

PyTorch implementation of EMAN for self-supervised and semi-supervised learning: https://arxiv.org/abs/2101.08482

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URL normalization for Python

Polyrhythmic Sequencer library for Web Audio API.

A mildly opiniated modern cloud service architecture blueprint + reference implementation

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Fast in-silico normalization algorithm for NGS data

Code for efficiently computing 2-point and 3-point correlation functions. For documentation, go to

[ICCV 2021 Oral] High-Resolution Optical Flow from 1D Attention and Correlation

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This package has migrated to https://github.com/rezakj/iCellR please use iCellR instead of scSeqR for more functionalities and updates.

Differential Gene Correlation Analysis

Normalization and denormalization of GraphQL responses

A Java API for high-throughput sequencing data (HTS) formats.

A model-based visualization method for microbiome data

Sampler, Sequencer, Multi-engine synth and effects - in a box! [WIP]

Finds SNP sites from a multi-FASTA alignment file

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

Text Normalization & Inverse Text Normalization

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A universe of scope- and type-safe syntaxes (syntices?). Includes generic implementation of type-preserving renaming/substitution with all the proofs you could possibly need.

A repository for setting up a RNAseq workflow

xHLA: Fast and accurate HLA typing from short read sequence data

Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`

Basecalling, alignment, assembly and deconvolution of Sanger Chromatogram trace files

A tool to circularize genome assemblies

Indigo: SNV and InDel Discovery in Chromatogram traces obtained from Sanger sequencing of PCR products

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

Genomics Extension for SQLite

🦔 PostHog provides open-source product analytics that you can self-host.

Structural variant toolkit for VCFs

python library for automated dataset normalization

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Implementation of code snippets, exercises and application to live data from Machine Learning for Asset Managers (Elements in Quantitative Finance) written by Prof. Marcos López de Prado.

Pure Pytorch implementation of Correlation Layer that commonly used in learning based optical flow estimator

Library for multi-dimensional, multi-sensor, uni/multivariate time series data analysis, unsupervised feature selection, unsupervised deep anomaly detection, and prototype of explainable AI for anomaly detector

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Callable Cancer Loci - assessment of sequencing coverage for actionable and pathogenic loci in cancer