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

A collection of publications on comparison of high-throughput sequencing technologies.

Fast in-silico normalization algorithm for NGS data

highly-efficient & lightweight mutation signature matrix aggregation

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

Simple & Efficient data access for Scala and Scala.js

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

Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI

Inferring bacterial recombination rates from large-scale sequencing datasets.

RNASeq pipeline

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

Validation and manipulation of FASTQ files, scRNA-seq barcode pre-processing and UMI quantification.

Differential Gene Correlation Analysis

Assembling the cause of phenotypes and genotypes from NGS data

Normalization and denormalization of GraphQL responses

A package for designing compact and comprehensive capture probe sets.

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

🚀 A sequencing simulator

A model-based visualization method for microbiome data

Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)

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

Tools for analyzing 10X Genomics data

Finds SNP sites from a multi-FASTA alignment file

Files and methodology pertaining to the sequencing and analysis of SARS-CoV-2, causative agent of COVID-19.

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

Framework for Metastatic And Clonal History INtegrative Analysis

Text Normalization & Inverse Text Normalization

gargammel is an ancient DNA simulator

Analysis Pipeline for Single Cell ATAC-seq

Improve the quality of a denovo assembly by scaffolding and gap filling

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.

FASTQ compression

A repository for setting up a RNAseq workflow

The Microbiome Interpretable Temporal Rule Engine

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`

exploratory and interactive microbiome analyses based on heatmaps

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

Visualize microbiome data with black magic ggtree

A tool to circularize genome assemblies

Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles

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

ganon classifies short DNA sequences against large sets of genomic sequences efficiently, with download and update of references (RefSeq/Genbank), taxonomic (NCBI/GTDB) and hierarchical classification, customized reporting and more

A collection of scripts and notes related to genomics and bioinformatics

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

Analysis pipelines for sequencing data

A best-practices CSS foundation

Genomics Extension for SQLite

Cross-platform normalization enables machine learning model training on microarray and RNA-seq data simultaneously

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

Sometimes you want to normalize data before saving it to the database like down casing e-mails, removing spaces and so on. This Rails plugin allows you to do so in a simple way.

Structural variant toolkit for VCFs

🔬 Очистка датасетов от мусора (нормализация, препроцессинг)

python library for automated dataset normalization

Discovering known and novel miRNAs from small RNA sequencing data

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

Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes

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

Perform statistics on Mixpanel API data

Official code repository for GATK versions 4 and up