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

Binomica Public Repository for Biological Parts

A Framework for Coalescent Simulation in R

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

Visualizing DNA Sequences via Javascript

pyQms, generalized, fast and accurate mass spectrometry data quantification

A DNA Sequence Alignment/Map (SAM) library for Clojure

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

Spatial alignment of single cell transcriptomic data.

minimalistic nucleic acid folding

PERF is an Exhaustive Repeat Finder

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

The Blue Brain BioExplorer (BBBE) is a tool for scientists to extract and analyze scientific data from visualization and interactive exploration

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

A library to build and execute typed scientific workflows

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

Fitness landscape exploration sandbox for biological sequence design.

Research on polio / protein folding.

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

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

De novo assembly from Oxford Nanopore reads.

♥ Essential Functions for DNA Manipulation

UGENE is free open-source cross-platform bioinformatics software

Contact map analysis for biomolecules; based on MDTraj

ABRA2

tools for reading, writing, merging, and remapping SNPs

Official code repository for GATK versions 4 and up

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

😴 📂 Create and Query a Local Copy of GenBank in R

Frequently used commands in bioinformatics

tools for working with genome variation graphs

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

Utilities for analyzing next generation sequencing data.

16,432 Free Yara rules created by

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

[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia

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

NexusTK DAT Object Viewer

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

Fast and flexible ORF finder

Myokit: A simple interface to cardiac cellular electrophysiology

CPM implementation in pure JavaScript

📊 Codon usage tables in code-friendly format + Python bindings

Predicting protein structure through sequence modeling

Learning Kinetic Models from Time Series Proteomics and Metabolomics Data

Collection of scripts for bacterial genomics

Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform

A curated list of awesome computational cryo-EM methods.

tidy processing of biological sequences in R

MView extracts and reformats the results of a sequence database search or multiple alignment.

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

Software for measuring poly(A) tail length and 3′-end modifications using a high-throughput sequencer

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

A Curated List of Computational Biology Datasets Suitable for Machine Learning

Clustering scRNAseq by genotypes

Bioinformatics toolkits for manipulating sequence, alignment, and phylogenetic tree files

Jupyter Dock is a set of Jupyter Notebooks for performing molecular docking protocols interactively, as well as visualizing, converting file formats and analyzing the results.

G-BLASTN is a GPU-accelerated nucleotide alignment tool based on the widely used NCBI-BLAST.

pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)

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