612 Open source projects that are alternatives of or similar to streamformatics

Predict plasmids from uncorrected long read data

d3 library to build circular graphs

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

SaffronTree: Reference free rapid phylogenetic tree construction from raw read data

Ploidy agnostic phasing pipeline and algorithm

Classify sequencing reads using MinHash.

Assembling the cause of phenotypes and genotypes from NGS data

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

Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.

Bystro genetic analysis (annotation, filtering, statistics)

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

MMseqs2 app to run on your workstation or servers

No description or website provided.

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

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

A D library for computational biology and bioinformatics

The Ontology for Biomedical Investigations

Project metadata manager for PEPs in Python

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

micca - MICrobial Community Analysis

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

transparently build CWL and Galaxy XML tool definitions for any script that uses argparse

d3js box plot plugin

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

transition on canvas with d3

🚦 Run Picard on BAM files and collate 90 metrics into one file.

Earl Grey: A fully automated TE curation and annotation pipeline

A simplified pipeline for ctDNA sequencing data analysis

A fast 23andMe genome text file parser, now superseded by arv

Sample search by metadata and features

SVG based pedigree chart module for webtrees genealogy application.

Phylogenetic trees in Julia

Graph Explorer

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

SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities in each sample, and the probability for each signature to cause a specific mutation type in a cancer sample. The tool makes use of SigProfilerMatrixGen…

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.

Examples using Clustergrammer2 to explore high-dimensional datasets.

WebLogo 3: Sequence Logos redrawn

VirNet: A deep attention model for viral reads identification

De novo assembly based variant calling pipeline for Illumina short reads

Aim to be the bioinformatics repository with more and newer packages

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

Have fun tracking your project's stargazers

Automated statistical and functional fine-mapping pipeline with extensive API access to datasets.

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

Introduction to the Unix Shell for biologists

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

🎤 Lyrics/associated NLP data for Billboard's Top 100, 1950-2015.

An implementation of Conway's Game of Life in Elixir

Mark the cities you have visited in Turkey and share the map!

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

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.

📦 🐳 Dockerfiles and documentation on tools for public health bioinformatics

No description or website provided.

Understandable visualizations for Ranked-Choice Voting elections: sankey, bargraphs, tabular formats, and automatically-generated videos with text-to-speech using AWS Polly.

Mapping-Assisted Targeted-Assembly for Metagenomics

Genotype Calling with Uncertainty from Sequencing Data in Polyploids 🍌🍓🥔🍠🥝

Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics

The Microbiome Interpretable Temporal Rule Engine

Curated list of bioinformatics formats and publications