676 Open source projects that are alternatives of or similar to Biopython

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

Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation

Numerical Encoding for Human Genetic Variants

🔬 BEDOPS: high-performance genomic feature operations

Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads

Bioinformatics library for .NET

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

Genomics Extension for SQLite

Provide R access to the NCI Genomic Data Commons portal.

A comprehensive tutorial about GWAS and PRS

A versatile pairwise aligner for genomic and spliced nucleotide sequences

A tool to circularize genome assemblies

Ultrafast de novo assembly for long noisy reads (though having no consensus step)

Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data

structural variant calling and genotyping with existing tools, but, smoothly.

A curated list of awesome Bioinformatics libraries and software.

Dynamic Kernel Matching (DKM) for Classifying Data with Non-conforming Features

karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome

Fast taxonomic classification of metagenomic sequencing reads using a protein reference database

A pipelining tool to automate and standardise bioinformatics analyses on cluster environments.

Post-analysis of immune repertoire sequencing data

Package for fetching metadata and downloading data from SRA/ENA/GEO

Metadata and website for the Open Bio Ontologies Foundry Ontology Registry

Bioinformatics Workbook repository

React component for Cytoscape.js network visualisations

De novo assembly from Oxford Nanopore reads.

Genomic Data Retrieval with R

Structural variant toolkit for VCFs

Script to automatically create and run IGV snapshot batchscripts

Conda recipes for the bioconda channel.

parallel fastq-dump wrapper

Pan-genome wide association studies

Remote protein homology detection suite.

SquiggleKit: A toolkit for manipulating nanopore signal data

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

GO enrichment with python -- pandas meets networkx

MyGene.info: A BioThings API for gene annotations

Biological sequences for the julia language

Protein Graph Library

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

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

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

Robust and efficient workflows using a simple language agnostic approach

SDK for GPU accelerated genome assembly and analysis

Chromosome visualization for the web

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:

The START App: R Shiny Transcriptome Analysis Resource Tool

A comprehensive library for computational molecular biology

Solutions to assignments of Coursera Specializations - Deep learning, Machine learning, Algorithms & Data Structures, Image Processing and Python For Everybody

😎 A curated list of software and resources for exploring and visualizing (browsing) expression data 😎

Global Biotic Interactions provides access to existing species interaction datasets

compacted de Bruijn graph construction in low memory

MISO: An open-source LIMS for NGS sequencing centres

Characterization of Germline variants

An overview of algorithms for estimating pseudotime in single-cell RNA-seq data

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

A curated list of resources for learning bioinformatics.

Python for Bioinformatics

Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls