123 Open source projects that are alternatives of or similar to poly

Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.

all-in-one solution for discovering novel DNA barcode

Nucleotide Archival Format - Compressed file format for DNA/RNA/protein sequences

DNA sequence viewer supporting custom, GenBank, FASTA, NCBI accession, and iGEM input.

Syntax highlighting for computational biology

Read DNA sequences from colourful Microsoft Word documents

Ultrafast sequence typing and gene detection from NGS raw reads

Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm

Software for prediction of plasmid sequences in metagenomic assemblies

Computational synthetic biology: Predicting DNA edits for bioengineering

FluentDNA allows you to browse sequence data of any size using a zooming visualization similar to Google Maps. You can use FluentDNA as a standalone program or as a python module for your own bioinformatics projects.

🎯 Generate DNA sequences with specified amino acid, codon, and k-mer frequencies

STAPLE (Shared Tools for Automatic Personalised Lower Extremity modelling) consists of a collection of methods for generating skeletal models from three-dimensional bone geometries, usually segmented from medical images. The methods are currently being expanded to create complete musculoskeletal models.

Numerical Encoding for Human Genetic Variants

A COBRApy extension for genome-scale models of metabolism and expression (ME-models)

This is the main repository for the HackBio'2020 Virtual Internship Experience ❤️

DeepChem 2017: Deep Learning & NLP for Computational Chemistry, Biology & Nano-materials

A route planner for DNA assembly

Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.

screenlamp is a Python toolkit for hypothesis-driven virtual screening

Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling

Web application enabling users and software to browse, upload, and share synthetic biology designs

Bioinformatics library in Kotlin

A prediction model for differential gene expression (DE) based on genome-wide regulatory interactions

BGC Detection and Classification Using Deep Learning

In-silico PCR and variant primer design

An R Package for Geneset Enrichment Workflows

Binomica Public Repository for Biological Parts

🤖 Python biolab automation library: parsers, reports generators, picklists simulators, and more

pyQms, generalized, fast and accurate mass spectrometry data quantification

Plasmid Atlas - A web interface to browse for plasmids and their associated genes. Visit us at:

A package for designing activity-informed nucleic acid diagnostics for viruses.

📖 Generation and Applications of Knowledge Graphs in Systems and Networks Biology

The Biochemical Algorithms Library

Sync paired-end FASTA/Q files and keep singleton reads

Bioinformatics workflows developed for and used on the St. Jude Cloud project.

Research on polio / protein folding.

Towards fast and accurate SNP genotyping from whole genome sequencing data for bedside diagnostics.

♥ Essential Functions for DNA Manipulation

Contact map analysis for biomolecules; based on MDTraj

tools for reading, writing, merging, and remapping SNPs

Generate input parameters and coordinates for atomistic and coarse-grained simulations of polymers, ssDNA, and carbohydrates

Frequently used commands in bioinformatics

Utilities for analyzing next generation sequencing data.

Code for design of diagnostic PCR primers, and metabarcoding markers.

Robust and scalable inference of cell lineages from gene expression data.

Myokit: A simple interface to cardiac cellular electrophysiology

A toolkit for painting agent-based mesoscale molecular simulations and illustrations.

A fast 23andMe DNA parser and inferrer for Python

Predicting protein structure through sequence modeling

CPM implementation in pure JavaScript

A standalone program that reads files created with the graphical network editor Escher and converts them to files in community standard formats.

Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets

A curated list of awesome computational cryo-EM methods.

tidy processing of biological sequences in R

Spatial alignment of single cell transcriptomic data.

Understand DNA structure and how machine learning can be used to work with DNA sequence data.

Code and Data to accompany "Dilated Convolutions for Modeling Long-Distance Genomic Dependencies", presented at the ICML 2017 Workshop on Computational Biology

circtools: a modular, python-based framework for circRNA-related tools that unifies several functionalities in a single, command line driven software.

An example GenBank file reader in Rust