PapenfussLab/nix-workshop

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PapenfussLab/nix-workshop

PapenfussLab

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gridss

GRIDSS: the Genomic Rearrangement IDentification Software Suite

bionix

Functional highly reproducible bioinformatics pipelines

StructuralVariantAnnotation

R package designed to simplify structural variant analysis

bioshake

Bioinformatics pipelines with Haskell and Shake

sv_benchmark

Comprehensive benchmark of structural variant callers

PathOS

PathOS is a clinical application for filtering, analysing and reporting on NGS variants

socrates

HaveYouSwappedYourSamples

This project contains simple methods to measure sample relatedness and identify potential swaps and contamination

Canary

A fast and self-contained amplicon pipeline tool.

clove

classification of higher-order structural variants from breakpoint data

CNspector

Web-based copy number browser.

sv_tools

A few tools for plotting and reasoning about genomic structural variants.

svaNUMT

assemble_var

A pipeline for the assembly of VAR genes from transcriptome data

VIRUSBreakend

Viral Integration Recognition Using Single Breakends

RothSchulze_pregnancy-gut-microbiome-T1D

Data, metadata and analyses performed in microbiome whole metagenomics sequencing data of women with and without T1D during pregnancy.

svqsc

Structural Variation Quality Score Calculator

svaRetro

Mungo

Python library for munging biological sequence and annotation data

IntroductionToGenomicsWorkshop

WEHI Masterclass Day 3: Genomics

dedumi

wgd.test

By modelling aneuploidy with interleaving branching processes we can make a decision about whether or not genome doubling occurred. We can also label each event as being pre or post GD.

MHC-clogs

MHC Class I Gene Search tool