522 Open source projects that are alternatives of or similar to ccs

Predict plasmids from uncorrected long read data

De novo assembly based variant calling pipeline for Illumina short reads

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

dysgu-SV is a collection of tools for calling structural variants using short or long reads

Method to optimally select samples for validation and resequencing

Fast proof-of-authority blockchain based on go-ethereum and tendermint

Complex structural variant detection from WGS data

Fast hash function for DNA sequences

Unsupervised domain adaptation method for relation extraction

Compute N50/NG50 and auN/auNG

Coolbeans is a distributed work queue that implements the beanstalkd protocol.

🎯 Human transcription factor target genes.

iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.

An NGS read trimming tool that is specific, sensitive, and speedy. (production)

An open-access bioinformatics text

Scalable long read self-correction and assembly polishing with multiple sequence alignment

Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.

Bioinformatics pipeline for SARS-CoV-2 sequencing at CZ Biohub

GWAS summary statistics files QC tool

🐛 How to use CENTIPEDE to determine if a transcription factor is bound.

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

Open source Java library for computational proteomics

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.

Main repository for POADAO consensus. Includes contracts for Initial Ceremony, Governance, Management of Validators

WebGL Heatmap Viewer for Big Data and Bioinformatics

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

A package for designing compact and comprehensive capture probe sets.

An ultra-sensitive and precise tool for characterizing T cell CDR3 sequences in TCR-seq and RNA-seq data.

2017_2018 single cell RNA sequencing Workshop UCD_UCB_UCSF

A pluggable implementation of the Egalitarian Paxos Consensus Protocol

Ploidy agnostic phasing pipeline and algorithm

A Python platform for Structural Bioinformatics

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

Useful bioinformatic scripts

Read and write FASTQ and FASTA efficiently from Python

Mulled - Automatized Containerized Software Repository

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

(No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia

API for linked biological knowledge

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

Golang for Bioinformatics

Provide R access to the NCI Genomic Data Commons portal.

Simple pure Python SAM parser and objects for working with SAM records

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

Elastic, reproducible, and reusable genomic data science tools from R backed by cloud resources

3D printed sculpture of a DNA molecule, showing my own genome

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

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

Implementation of Neural Distance Embeddings for Biological Sequences (NeuroSEED) in PyTorch (NeurIPS 2021)

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

Version 5 of the CAFE phylogenetics software

Streamlining SLAM-seq analysis with ultra-high sensitivity

Improving genome bins through the combination of different binning programs

An R package for reproducible and automated ADMIXTOOLS analyses

Fast and flexible ORF finder

An experimental distributed ledger platform based on a sea of DAG Nodes

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

Fast-SG: An alignment-free algorithm for ultrafast scaffolding graph construction from short or long reads.

CoNekT (short for Co-expression Network Toolkit) is a platform to browse co-expression data and enable cross-species comparisons.

Assembling the cause of phenotypes and genotypes from NGS data