184 Open source projects that are alternatives of or similar to tracy

Indigo: SNV and InDel Discovery in Chromatogram traces obtained from Sanger sequencing of PCR products

CCTyper: Automatic detection and subtyping of CRISPR-Cas operons

parallelized blat with multi-threads support

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.

xHLA: Fast and accurate HLA typing from short read sequence data

In-silico PCR and variant primer design

Callable Cancer Loci - assessment of sequencing coverage for actionable and pathogenic loci in cancer

Official code repository for GATK versions 4 and up

Rapid large-scale prokaryote pan genome analysis

A python-based isomiR quantification and analysis pipeline

fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

De novo assembly from Oxford Nanopore reads.

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

Python package for extracting and analyzing image representations from state-of-the-art neural networks for computer vision

Data intensive science for everyone.

Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data

A custom layout object based on flow layout. Added supports for horizontal, vertical alignment and RTL direction of collection view items.(available for both UICollectionView and NSCollectionView)

Fast and accurate sequence demultiplexing

Synthego ICE - Inference of CRISPR Editing software

Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation

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

Double Sided Assembly Line Balancing with Genetic Algorithm (C#)

UGENE is free open-source cross-platform bioinformatics software

Assembling the cause of phenotypes and genotypes from NGS data

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

Discovering known and novel miRNAs from small RNA sequencing data

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

Analysis pipelines for sequencing data

A Python library for creating and manipulating musical patterns, designed for use in algorithmic composition, generative music and sonification. Can be used to generate MIDI events, MIDI files, OSC messages, or custom events.

Antimicrobial Resistance Identification By Assembly

🚀 A sequencing simulator

HTS-compatible wrapper for IgBlast V-(D)-J mapping tool

Analysis Pipeline for Single Cell ATAC-seq

A collection of publications on comparison of high-throughput sequencing technologies.

Highly performant data storage in C++ for importing, querying and transforming variant data with C/C++/Java/Spark bindings. Used in gatk4.

highly-efficient & lightweight mutation signature matrix aggregation

A repository for setting up a RNAseq workflow

Simple & Efficient data access for Scala and Scala.js

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

Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`

RNASeq pipeline

A tool for fast and accurate summarizing of variant calling format (VCF) files

Validation and manipulation of FASTQ files, scRNA-seq barcode pre-processing and UMI quantification.

A tool to circularize genome assemblies

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

A package for designing compact and comprehensive capture probe sets.

A collection of scripts and notes related to genomics and bioinformatics

Parsing, Manipulation, and Visualization of Metabarcoding/Taxonomic data

AStarix: Fast and Optimal Sequence-to-Graph Aligner

Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)

Genomics Extension for SQLite

Sampler, Sequencer, Multi-engine synth and effects - in a box! [WIP]

Tools for analyzing 10X Genomics data

Polyrhythmic Sequencer library for Web Audio API.

Sequence lineage information extracted from RKI sequence data repo

Structural variant toolkit for VCFs

Files and methodology pertaining to the sequencing and analysis of SARS-CoV-2, causative agent of COVID-19.

uLTRA is a long-read splice aligner with high accuracy from using a guiding annotation

HMMRATAC peak caller for ATAC-seq data