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FOXOBioScience
methylprep

Python-based preprocessing software for Illumina methylation arrays

3K 42 16
brj0
mepylome

Python toolkit for parsing, processing, and analysis of Illumina methylation array IDAT files

2K 10 1
eliopato
pylluminator

Python package for processing and analyzing Illumina DNA methylation data

1K 11 1
liguowang
cpgtools

Python package to analyze DNA methylation data

923 45 13
fraenkel-lab
garnet

No description available

789 4 2
nanoporetech
megalodon

Nanopore base calling augmentation.

752 204 27
BIMSBbioinfo
janggu

Utilities and datasets for deep learning in genomics

710 258 35
KarrLab
bpforms

Toolkit for concretely describing non-canonical DNA, RNA, and proteins

513 7 2
Genome-Function-Initiative-Oxford
zen-norm

Zone Equalisation Normalisation: A Python package for bigWig scaling

488 1 0
cangermueller
deepcpg

Deep neural networks for predicting CpG methylation

472 152 71
andrewdavidsmith
pyxfr

The Transferase Python API

456 4 0
aryeelab
hichipper

A preprocessing and QC pipeline for HiChIP data

442 40 15
caleblareau
mgatk

Mitochondrial genome analysis toolkit.

411 111 29
nanoporetech
ont-tombo

Tombo is a suite of tools primarily for the identification of modified nucleotides from raw nanopore sequencing data.

324 233 54
bioinfomaticsCSU
deepsignal

Detecting methylation using signal-level features from Nanopore sequencing reads

299 118 23
MuteJester
pyncbi

A Python API library for exploration and data retrieval from NCBI

292 3 3
ChaorongC
mesa-cfdna

Multimodal Epigenetic Sequencing Analysis (MESA) is a flexible and sensitive method of capturing and integrating multimodal epigenetic information of cfDNA using a single experimental assay.

291 2 0
caleblareau
bap-atac

Bead-based single-cell atac processing

150 33 8
eliopato
pylluminator-modern

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

81 11 1
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