Illumina Python Packages

sequali

Sequali is a QC tool that generates useful graphs for both short and long-read data.

s4-clarity

A modern Python library for BaseSpace Clarity LIMS.

sample-sheet

Parse Illumina sample sheets with Python

aldy

A tool for allelic decomposition (haplotype reconstruction) and exact genotyping of highly polymorphic and structurally variant genes

mepylome

Python package for processing Infinum DNA methylation arrays

ampligone

A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment

pylluminator

Python package for processing and analyzing Illumina DNA methylation data

assnake

Snakemake based framework for NGS data analysis and management

arvia

ARVIA (Antibiotic Resistance Variant Identifier for Pseudomonas aeruginosa) takes single-end/paired-end reads and/or assemblies to perform exhaustive variant calling of genes related to antibiotic resistance in Pseudomonas aeruginosa.

monte-barcode

🔴🟢🔵⚫️ Generating sets of random DNA sequences optimized for use in high-throughput sequencing.

iscanvcfmerge

Python tool to merge cross-species Illumina iScan genotype data with a reference set of genotypes from a pre-existing source.

pylluminator-modern

Tool to preprocess, analyze and visualize DNA methylation data from Illumina micro-arrays