689 Open source projects that are alternatives of or similar to Cobrapy

INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, produce causal graphs and dynamical models.

Analytical Web Apps for Python, R, Julia, and Jupyter. No JavaScript Required.

Dash for Julia - A Julia interface to the Dash ecosystem for creating analytic web applications in Julia. No JavaScript required.

micca - MICrobial Community Analysis

MMseqs2 app to run on your workstation or servers

This library tackles the construction and efficient execution of computational chemistry workflows

Minimal Flux architecture written in Kotlin.

No description or website provided.

The uncompromising Snakemake code formatter

𝙋𝙝𝙮𝙡𝙤𝙜𝙚𝙣𝙚𝙩𝙞𝙘 𝘾𝙤𝙢𝙥𝙤𝙣𝙚𝙣𝙩 𝙂𝙧𝙖𝙥𝙝 ⸺ Haskell program and libraries for general phylogenetic graph search

A fast 23andMe genome text file parser, now superseded by arv

An ambitiously tiny, gizp ~800b, flux-like library to manage your state

The code in this repo is intended for people who want to get started building universal flux applications, with modern and exciting technologies such as Reactjs, React Router and es6.

The Ontology for Biomedical Investigations

Reactive: Examples of the most famous reactive libraries that you can find in the market.

BACNET is a Java based platform to develop website for multi-omics analysis

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

Curated list of bioinformatics formats and publications

annotate a VCF with other VCFs/BEDs/tabixed files

An efficient graph solver for generating well-formed models

Sample search by metadata and features

Example client programs for Saphetor's VarSome annotation API

Generate duplex/single consensus reads to reduce sequencing noises and remove duplications

WebLogo 3: Sequence Logos redrawn

Predict plasmids from uncorrected long read data

Examples using Clustergrammer2 to explore high-dimensional datasets.

DOM Text Based Multiple Sequence Alignment Library

Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.

A simplified pipeline for ctDNA sequencing data analysis

[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia

Phylogenetic trees in Julia

Aim to be the bioinformatics repository with more and newer packages

Welcome to the website and github repository for the Genome Analysis Module. This website will guide the learning experience for trainees in the UBC MSc Genetic Counselling Training Program, as they embark on a journey to learn about analyzing genomes.

A React web application to query and share any PostgreSQL database.

De novo assembly based variant calling pipeline for Illumina short reads

Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests

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

Object-Oriented Perl 5, Moose Library for Molecular Hacking

Software for comparing contact maps from HiC, CaptureC and other 3D genome data.

A standard implementation conforming to the Global Alliance for Genomics and Health (GA4GH) Workflow Execution Service (WES) API specification and a web application for managing and executing those WES services.

Build and maintain multiple custom conda environments all in once place.

Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs

Earl Grey: A fully automated TE curation and annotation pipeline

React 中的坑

No description or website provided.

Detecting methylation using signal-level features from Nanopore sequencing reads of plants

📊 Identify cell types and pathways affected by genetic risk loci.

A D library for computational biology and bioinformatics

Project metadata manager for PEPs in Python

👁 Python library to plot DNA sequence features (e.g. from Genbank files)

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

ImmuneDB - A system for the analysis and exploration of high-throughput adaptive immune receptor sequencing data

Highly adaptable common interface for proteomics search and de novo engines

Molecular informatics toolkit with a comprehensive integration of bioinformatics and cheminformatics tools for drug discovery.

For live demo, see http://lh3lh3.users.sourceforge.net/bioseq.shtml

Simple yet powerful CAD (Computer Aided Design) library, written with Python.

VirNet: A deep attention model for viral reads identification

📦 🐳 Dockerfiles and documentation on tools for public health bioinformatics

A high-performance, Pythonic language for bioinformatics

Making GitOps with Kubernetes easier one component at a time