316 Open source projects that are alternatives of or similar to nthash

Fast hash function for DNA sequences

xxHash framework in Swift.

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

A DNA Sequence Alignment/Map (SAM) library for Clojure

Genomics Workflows on AWS

Collection of scripts for bacterial genomics

Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, etc.).

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

Genome-wide imputation pipeline

cython + htslib == fast VCF and BCF processing

Performant Pythonic GenomicRanges

programs and scripts, mainly python, for analyses related to nucleic or protein sequences

a pileup library that embraces the huge

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

The GenePattern Server web application

Mapping-based Genome Size Estimation (MGSE) performs an estimation of a genome size based on a read mapping to an existing genome sequence assembly.

Genome Annotation Without Nightmares

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

A secure encryption tool for genomic data

JavaScript VisualizationTools

simuG: a general-purpose genome simulator

An ultrafast memory-efficient short read aligner

Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes

Generator for order-preserving minimal perfect hash functions in C

🔬 BEDOPS: high-performance genomic feature operations

Fast large scale matrix visualization for the web.

Population assignment analysis using R

Security-oriented protobuf-like serialization format with "Merkleized" content hashing support

Interfaces and implementations of cryptographic primitives, along with R1CS constraints for them

use the noise

Find target sites for the miRNAs in genomic sequences

Finds SNP sites from a multi-FASTA alignment file

Build a Node, Express and MySQL-based clone of Reddit for DecodeMTL web development bootcamp

GA4GH Variation Representation Python Implementation

LibSWIFFT - A fast C/C++ library for the SWIFFT secure homomorphic hash function

Performs memory-efficient reservoir sampling on very large input files delimited by newlines

🍊 💫 Trim, circularise and orient long read bacterial genome assemblies

DriverPower

Seven Bridges Genomics aligner/caller debugging and analysis tools

Biopython Jupyter Notebook tutorial to characterize a small genome

A WGS de novo assembler based on the FMD-index for large genomes

A Snakemake workflow to process single samples or cohorts of paired-end sequencing data (WGS or WES) using trim galore/bwa/GATK4/parabricks.

Haplotype VCF comparison tools

Phage-Host Interaction Search Tool

Official git repository for Biopython (originally converted from CVS)

Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model

A toolkit to learn how to model and interpret regulatory sequence data using deep learning.

High-performance error correction for Illumina resequencing data

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

Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding

Ultrafast de novo assembly for long noisy reads (though having no consensus step)

Easy genetic ancestry predictions in Python

SDK for GPU accelerated genome assembly and analysis

LRSDAY: Long-read Sequencing Data Analysis for Yeasts

FlowCraft: a component-based pipeline composer for omics analysis using Nextflow. 🐳📦

viGEN - A bioinformatics pipeline for the exploration of viral RNA in human NGS data

A bioinformatics API and web-app to integrate multi-omics datasets & interface with public databases.

simple viewer for variant call format using htslib

Large genome reassembly based on Hi-C data, continuation of GRAAL

mity: A highly sensitive mitochondrial variant analysis pipeline for whole genome sequencing data