83 Open source projects that are alternatives of or similar to astarix

Rapid large-scale prokaryote pan genome analysis

Antimicrobial Resistance Identification By Assembly

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

Intuitive local web frontend for the BLAST bioinformatics tool

Official code repository for GATK versions 4 and up

No description or website provided.

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

gargammel is an ancient DNA simulator

An interactive web tool for quality control of DNA sequencing data

Julia and Python recursion algorithm, fractal geometry and dynamic programming applications including Edit Distance, Knapsack (Multiple Choice), Stock Trading, Pythagorean Tree, Koch Snowflake, Jerusalem Cross, Sierpiński Carpet, Hilbert Curve, Pascal Triangle, Prime Factorization, Palindrome, Egg Drop, Coin Change, Hanoi Tower, Cantor Set, Fibo…

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.

A python-based isomiR quantification and analysis pipeline

Making the quickest and most memory efficient implementation of Levenshtein Distance with SIMD and Threading support

De novo assembly from Oxford Nanopore reads.

Edit distance algorithms inc. Jaro, Damerau-Levenshtein, and Optimal Alignment

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

Finds SNP sites from a multi-FASTA alignment file

UGENE is free open-source cross-platform bioinformatics software

Sørensen–Dice coefficient

Polyrhythmic Sequencer library for Web Audio API.

Graph algorithms in lua

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

Improve the quality of a denovo assembly by scaffolding and gap filling

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

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

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

highly-efficient & lightweight mutation signature matrix aggregation

A curated list of papers dedicated to edit-distance as objective function

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

Multilocus sequence typing by blast using the schemes from PubMLST

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

Differential abundance (DA) and correlation analyses for microbial absolute abundance data

Analysis Pipeline for Single Cell ATAC-seq

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

A repository for setting up a RNAseq workflow

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

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

Fast approximate strings search & spelling correction

A tool to circularize genome assemblies

Collection of scripts for bacterial genomics

A collection of scripts and notes related to genomics and bioinformatics

Tools for analyzing 10X Genomics data

Genomics Extension for SQLite

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

Structural variant toolkit for VCFs

Cloud-based single-cell copy-number variation analysis tool

Discovering known and novel miRNAs from small RNA sequencing data

Java Code for Contraction Hierarchies Algorithm, A-Star Algorithm and Bidirectional Dijkstra Algorithm. Tested and Verified Code.

Analysis pipelines for sequencing data

Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data

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

HMMRATAC peak caller for ATAC-seq data

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

Maximum likelihood demultiplexing

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

Algorithms in python and C

Sequence lineage information extracted from RKI sequence data repo

Framework for Metastatic And Clonal History INtegrative Analysis

FASTQ compression

Levenshtein algorithm in C