590 Open source projects that are alternatives of or similar to Ribbon

Create regional association plots from GWAS or meta-analysis

Introduction to the Unix Shell for biologists

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

Introduction to Applied Mathematics and Informatics in Drug Discovery (AMIDD)

GeneValidator: Identify problems with predicted genes

EDAM is an ontology of bioinformatics types of data including identifiers, data formats, operations and topics.

Versatile open-source tool for microbiome analysis

Command-line program to wrap dagchainer and combine pairwise results into multi-alignments in column format

MetaSRA: normalized sample-specific metadata for the Sequence Read Archive

MMseqs2: ultra fast and sensitive search and clustering suite

Tools to work with variant call format files

🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results

GO enrichment with python -- pandas meets networkx

Workflow Description Language - Specification and Implementations

Fast motif matching in R

Comprehensive toolkit for generating various numerical features of protein sequences

Home of the Genomic Feature and Variation Ontology (GFVO)

An ontology of cell types

Using artificial intelligence and genetic algorithms to automatically write programs. Tutorial: http://www.primaryobjects.com/cms/article149

MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. For documentation and downloading the program, please see the home page:

Genotyping of segregating mobile elements insertions

Randomly subsample sequencing reads to a specified coverage

d3 library to build circular graphs

Seven Bridges API Client, CWL Schema, Meta Schema, and SDK Helper in R

Bioinformatics containers

MyGene.info: A BioThings API for gene annotations

A cross-platform command-line tool for executing jobs in parallel

The sources of the openSNP website

Genomics data visualization in Python by using matplotlib.

✏️ A versatile DNA sequence optimizer

Python library to handle Gene Ontology (GO) terms

Biological sequences for the julia language

C++ library and cmdline tools for parsing and manipulating VCF files

Annotated data.

MiXCR is a universal software for fast and accurate extraction of T- and B- cell receptor repertoires from any type of sequencing data. Free for academic use only.

Single cell perturbation prediction

Tools for working with SAM/BAM data

Stacked Denoising AutoEncoder based on TensorFlow

GWAS summary statistics files QC tool

Single-Cell Analysis in Python. Scales to >1M cells.

(No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia

Estimate metagenomic coverage and sequence diversity

3D printed sculpture of a DNA molecule, showing my own genome

Cuneiform distributed programming language

Genetic Map Comparison

Javascript full-stack framework for Big Data visualisation and analysis

Provides access to complex Bioinformatics software (even BioLinux!) in just one command.

fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

A Python platform for Structural Bioinformatics

Signal-level algorithms for MinION data

Protein-Level ASSembler (PLASS): sensitive and precise protein assembler

Plant image analysis using OpenCV

R package for analyzing single-cell RNA-seq data

Application for making ENCODE Blacklists

Robust and efficient workflows using a simple language agnostic approach

A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)

Cutadapt removes adapter sequences from sequencing reads

The START App: R Shiny Transcriptome Analysis Resource Tool

A scikit-learn compatible library for graph kernels

Working with molecular structures in pandas DataFrames