578 Open source projects that are alternatives of or similar to unimap

Estimate metagenomic coverage and sequence diversity

Javascript full-stack framework for Big Data visualisation and analysis

Tidy Verbs for Dealing with Genomic Data Frames https://const-ae.github.io/tidygenomics/

Genome-wide imputation pipeline

Python module for average nucleotide identity analyses

A wrapper for the EnsEMBL REST API

A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences

Pegasus Workflow Management System - Automate, recover, and debug scientific computations.

The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.

(formerly eelpond) an automated RNA-Seq workflow system

Computational Analysis of Novel Drug Opportunities

highly-efficient & lightweight mutation signature matrix aggregation

The Ensembl Compara Perl API and SQL schema

Environmental DNA metabarcoding taxonomic identification

Neural Networks for Protein Sequence Alignment

WebAssembly modules for genomics

Easy genetic ancestry predictions in Python

A Practical and Efficient NCBI Taxonomy Toolkit

Consensus calling (or "reference assisted assembly"), chiefly of ancient mitochondria

A Python package for fast operations on 1-dimensional genomic signal tracks

Protein Graph Library

Toolkit for processing sequences in FASTA/Q formats

Python for Bioinformatics

ntHash implementation in Rust

SortMeRNA: next-generation sequence filtering and alignment tool

A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using coalescent and concatenation approaches

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

INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, produce causal graphs and dynamical models.

Unix, R and python tools for genomics and data science

Genome assembly evaluation tool

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

Bioinformatics workflows developed for and used on the St. Jude Cloud project.

Python package and CLI for whole-genome duplication related analyses

A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)

Cuneiform distributed programming language

Command line utility for manipulating Illumina-generated FastQ files.

Curated (meta)list of resources for Biology.

MMseqs2: ultra fast and sensitive search and clustering suite

GA4GH Variation Representation Python Implementation

A repository for setting up a RNAseq workflow

Population assignment analysis using R

pymzML - an interface between Python and mzML Mass spectrometry Files

Bioinformatics containers

My collection of light bioinformatics analysis pipelines for specific tasks

Tools for working with genomic and high throughput sequencing data.

An R framework for phylostratigraphy

Transcripts annotation and GO enrichment Fisher tests

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

Demonstrating best practices for bioinformatics command line tools

Fast Reference-Guided Scaffolding of Genome Assembly Contigs. RagTag, the successor to RaGOO, is now available here: https://github.com/malonge/RagTag

Plant image analysis using OpenCV

pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)

✏️ A versatile DNA sequence optimizer

A fast multiple sequence alignment program.

A DSL for data-driven computational pipelines

Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.

BISulfite-seq CUI Toolkit

FastQC port to Qt5: A quality control tool for high throughput sequence data.

Genomics Workflows on AWS

Race and ethnicity Imputation from Disease history with Deep LEarning