407 Open source projects that are alternatives of or similar to bioseq-js

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

Bystro genetic analysis (annotation, filtering, statistics)

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

A Python platform for Structural Bioinformatics

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.

Mulled - Automatized Containerized Software Repository

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

This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion

Earl Grey: A fully automated TE curation and annotation pipeline

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

A library to build and execute typed scientific workflows

A curated list of resources for machine learning for small-molecule drug discovery

A simplified pipeline for ctDNA sequencing data analysis

Version 5 of the CAFE phylogenetics software

Fast motif matching in R

Feature extraction algorithm for genomic data

A fast 23andMe genome text file parser, now superseded by arv

🎯 Human transcription factor target genes.

React rerelease of MSAViewer

Ploidy agnostic phasing pipeline and algorithm

De novo assembly based variant calling pipeline for Illumina short reads

MetaOmGraph: a workbench for interactive exploratory data analysis of large expression datasets

Genotyping of segregating mobile elements insertions

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

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

API for linked biological knowledge

netSmooth: A Network smoothing based method for Single Cell RNA-seq imputation

Golang for Bioinformatics

The Microbiome Interpretable Temporal Rule Engine

A Kotlin DSL and library to create and plot RNA 2D structures

EpiViz is a scientific information visualization tool for genetic and epigenetic data, used to aid in the exploration and understanding of correlations between various genome features.

Open source Java library for computational proteomics

Predict plasmids from uncorrected long read data

Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integration Center) to process data. Tibanna supports CWL/WDL (w/ docker), Snakemake (w/ conda) and custom Docker/shell command.

Per-base per-nucleotide depth analysis

Command line tool to run batch jobs concurrently with ETL framework on AWS or other cloud computing resources

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

Improving genome bins through the combination of different binning programs

Genomics data visualization in Python by using matplotlib.

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

Examples using Clustergrammer2 to explore high-dimensional datasets.

Classify sequencing reads using MinHash.

Highly customizable, ambiguity-aware dotplots for visual sequence analyses

Single Cell Analysis Pipelines

Phylogenetic trees in Julia

A curated list of phage related software and computational resources for phage scientists, bioinformaticians and enthusiasts.

Assembling the cause of phenotypes and genotypes from NGS data

Protwis is the backbone of the GPCRdb. The GPCRdb contains reference data, interactive visualisation and experiment design tools for G protein-coupled receptors (GPCRs).

VirNet: A deep attention model for viral reads identification

A permissively licensed library designed to replace Illumina's Experiment Manager

Stacked Denoising AutoEncoder based on TensorFlow

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

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

My own tools code for NGS data analysis (Next Generation Sequencing)

GWAS summary statistics files QC tool

📦 🐳 Dockerfiles and documentation on tools for public health bioinformatics

Rapid determination of appropriate reference genomes.

The Ontology for Biomedical Investigations

Curated list of bioinformatics formats and publications

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