214 Open source projects that are alternatives of or similar to pyrodigal

Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy

Download and use genomes the easy way.

Python library for ODE integration via Taylor's method and LLVM

Easy function multiversioning for Rust

Genome annotation with AUGUSTUS

Cython wrapper for Blend2D

A Haskell library for fast, memory-efficient decoding of JSON documents using the simdjson C++ library

Portable 128-bit SIMD intrinsics

A genome browser that shows long reads and complex variants better

Math extensions for SCNVector3, SCNQuaternion, SCNMatrix4

fastest text uwuifier in the west

Using artificial intelligence and genetic algorithms to automatically write programs. Tutorial: http://www.primaryobjects.com/cms/article149

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

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

AnyDSL Runtime Library

Guided Missile, Radar and Infrared EOS Simulation Framework written in Fortran.

An algorithm for recovering haplotypes from metagenomes

Support for ternary logic in SSE, XOP, AVX2 and x86 programs

Fast Unit Root Tests and OLS regression in C++ with wrappers for R and Python

karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome

De novo annotation of young retrotransposons

Next generation sequencing reads de novo assembler.

Simple and fast C++ image processing library with focus on heterogeneous systems

🌈Scaffold genome sequence assemblies using linked read sequencing data

A compiler, assembler, and processor.

Optimized string search routines for Rust.

Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model

Amplifier allows .NET developers to easily run complex applications with intensive mathematical computation on Intel CPU/GPU, NVIDIA, AMD without writing any additional C kernel code. Write your function in .NET and Amplifier will take care of running it on your favorite hardware.

Transpose: SIMD Integer+Floating Point Compression Filter

Move to: https://github.com/templexxx/xorsimd

⛰ covtobed | Convert the coverage track from a BAM file into a BED file

A fast 23andMe DNA parser and inferrer for Python

.NET Core 3.0 implementation of AES-GCM-SIV nonce misuse-resistant authenticated encryption

R package: parallel computing toolset for relatedness and principal component analysis of SNP data (Development Version)

SIMDized check which bytes are in a set

Genome Interval Arithmetic in R

Quick ADC

Comparing linear and binary searches

DSP library for signal processing

Learning and practice of high performance computing (CUDA, Vulkan, OpenCL, OpenMP, TBB, SSE/AVX, NEON, MPI, coroutines, etc. )

🔬 Assemble large genomes using short reads

Triangle rasterization routines accelerated by SSE and AVX

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

Understand DNA structure and how machine learning can be used to work with DNA sequence data.

GenomeTools genome analysis system.

qHilbert is a vectorized speedup of Hilbert curve generation using SIMD intrinsics

Viral genomics analysis pipelines

A SIMD-accelerated concurrent hash table.

Genomic Data Retrieval with R

Fast numerical computation of (inverse) nonlinear Fourier transforms

Base64 encoding / decoding with SIMD-support, also base64Url

Official code repository for GATK versions 4 and up

SIMD enhanced Array operations

A fast implementation of single-pattern substring search using SIMD acceleration.

Nanopore sequence read simulator

std::find simd version

[Experimental] LLVM-accelerated Generic Linear Algebra Subprograms

A python interface to access and manage VMware vSphere and ~Horizon View~

Auto-generated maths library for C and C++ based on HLSL/Cg