Epigenetics Python Packages

methylprep

Python-based preprocessing software for Illumina methylation arrays

mepylome

Python package for processing Infinum DNA methylation arrays

cpgtools

Tools to analyze and visualize DNA methylation data

garnet

No description available

pylluminator

Python package for processing and analyzing Illumina DNA methylation data

zen-norm

ZEN-norm is a Python package for normalising bigWigs of genomic signal, reversing prior normalisation and benchmarking normalisation method performance.

bpforms

Unambiguous representation of modified DNA, RNA, and proteins

megalodon

Nanopore base calling augmentation.

janggu

Deep learning infrastructure for genomics

deepcpg

Deep neural networks for predicting CpG methylation

hichipper

A preprocessing and QC pipeline for HiChIP data

pyncbi

A Python API library for exploration and data retrieval from NCBI

pyxfr

The Transferase Python API

deepsignal

Detecting methylation using signal-level features from Nanopore sequencing reads

mgatk

mgatk: mitochondrial genome analysis toolkit

ont-tombo

Analysis of raw nanopore sequencing data.

mesa-cfdna

A flexible and sensitive method for capturing and integrating multimodal epigenetic information from cell-free DNA (cfDNA) using a single experimental assay.

bap-atac

Bead-based scATAC-seq data Processing.

pylluminator-modern

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