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A list of awesome tools for complex trait genetics.

55 14 Updated Dec 19, 2024

💌 Create simple, beautiful personal websites and landing pages using only R Markdown.

HTML 552 88 Updated Dec 21, 2022

Refining the impact of genetic evidence on clinical success

R 23 3 Updated Jul 14, 2024

HLA-TAPAS pipeline for HLA association and fine-mapping studies

Jupyter Notebook 50 22 Updated Dec 19, 2023

Time-stratified f-statistics

C++ 8 Updated Dec 11, 2024

neural network for estimating demographic maps from SNPs

Python 9 1 Updated Jun 30, 2024
Python 14 1 Updated Dec 3, 2024
Shell 5 Updated Mar 20, 2024

The GitHub for CLUES2, a method for inferring and evaluating evidence for selection.

Python 8 Updated Sep 19, 2024

Download FASTQ files from SRA or ENA repositories.

Python 285 24 Updated Oct 20, 2024

fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"

Nim 272 38 Updated Feb 2, 2024
Haskell 43 10 Updated Nov 22, 2024
Shell 12 Updated Dec 3, 2024

Sampling profiler for Python programs

Rust 13,081 439 Updated Dec 17, 2024

Create a magnified inset of part of a ggplot object

R 277 3 Updated Jun 24, 2024

Snakemake pipeline for benchmarking read mappers

Python 16 1 Updated Dec 11, 2023

Code to generate Ancestral Risk Scores from painting data

Jupyter Notebook 1 Updated Aug 9, 2023

Statistical tests for Ancestry Anomaly from Painting data

R 1 Updated Aug 10, 2023

NGSNGS: Next generation simulator for next generation sequencing data

C++ 51 6 Updated Nov 27, 2024

This is the Rust course used by the Android team at Google. It provides you the material to quickly teach Rust.

Rust 28,269 1,695 Updated Jan 2, 2025

AncestralPaths is a local ancestry painting technique based on genealogies produced by RELATE. The method aims to assign 'path' ancestries to segments of chromosomes the decribe the path back throu…

Python 9 1 Updated Jun 29, 2023

Read-based phasing of genomic variants, also called haplotype assembly

Python 345 40 Updated Dec 20, 2024

mapping pipeline for ancient DNA

Python 26 3 Updated Dec 13, 2024

RTG Tools: Utilities for accurate VCF comparison and manipulation

Java 304 48 Updated May 28, 2024

Flexible genotype query among 30,000+ samples whole-genome

C 96 10 Updated Sep 4, 2019

Precision HLA typing from next-generation sequencing data

Nextflow 63 31 Updated Dec 20, 2024

Code for Klunk, Vilgalys, et al. 2022, Nature

Python 8 2 Updated Jul 8, 2024

A library to generate LaTeX expression from Python code.

Python 7,360 392 Updated Dec 20, 2024

Evaluate the effectiveness of any short read mapper and its parameters using artificially generated reads. See the "releases" page for download: https://github.com/mlell/tapas/releases. The manual …

Python 3 1 Updated May 26, 2024

Consensify method for error reduction in ancient DNA pseudohaploidisation

C++ 4 1 Updated Oct 30, 2024
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