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17 stars written in Shell
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Unix, R and python tools for genomics and data science

Shell 1,381 366 Updated Aug 25, 2025

GUI/CommandLine Tool Box for biologistists to utilize NGS data.

Shell 1,051 196 Updated Apr 5, 2026

the pangenome graph builder

Shell 493 48 Updated Mar 31, 2026

A One-Click System for Analyzing Loop-Resolution Hi-C Experiments

Shell 480 194 Updated Aug 31, 2025

3D de novo assembly (3D DNA) pipeline

Shell 225 58 Updated Nov 29, 2023

MUM&Co uses Whole Genome Alignment information provided by MUMmer (only v4) to detect Structural Variation

Shell 76 15 Updated Jan 12, 2026

Pipeline for structural variant image curation and analysis.

Shell 49 2 Updated Dec 5, 2021

Methods to integrate data from multiple genome sequencing datasets and form consensus variant calls

Shell 45 12 Updated Jan 26, 2022
Shell 44 7 Updated May 8, 2024

An easy way to run BioNano genomic analysis

Shell 27 7 Updated Apr 9, 2021

Micro DNA identification

Shell 23 13 Updated Aug 5, 2021
Shell 21 7 Updated Apr 14, 2019

Accurate Typing of Human Leukocyte Antigen (HLA) by Oxford Nanopore Sequencing

Shell 17 2 Updated Jan 19, 2018

yeast pangenome

Shell 9 2 Updated Jul 29, 2020

https://www.sib.swiss/training/course/2017-11-longreads

Shell 8 Updated Oct 11, 2017

Structural variant benchmark using PacBio HiFi reads

Shell 6 1 Updated Aug 23, 2023