PyRank

Methylation Python Packages

Python packages with the GitHub topic methylation. Sorted by monthly downloads, with stars and forks.
FOXOBioScience
methylprep

Python-based preprocessing software for Illumina methylation arrays

2K 43 15
NuttyLogic
bsbolt

BiSulfite Bolt - A Bisulfite Sequencing Alignment and Processing Tool

2K 26 10
brj0
mepylome

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

1K 12 1
lucascamillomd
cpgpt

CpGPT: a Foundation Model for DNA Methylation.

1K 83 19
clementlab
methylseg

MethylSeg is a context-aware methylome segmentation framework for identifying Highly, Intermediately, Partially, and Lowly methylated domains.

784 1 0
liguowang
cpgtools

Python package to analyze DNA methylation data

700 46 12
lhqing
cemba-data

Mapping pipeline for snmC-seq based technologies.

680 20 9
mcwdsi
bam2tensor

Convert methylation data to sparse objects for machine learning.

568 1 0
shitohana
bismarkplot

Comprehensive tool for visualizing genome-wide cytosine data.

482 9 0
nanoporetech
ont-remora

Methylation/modified base calling separated from basecalling.

457 190 29
andrewdavidsmith
pyxfr

The transferase system for retrieving methylome data from methbase

388 4 0
Paradoxdruid
pyllelic

pyllelic: a tool for detection of allele-specific methylation variation in bisulfite DNA sequencing.

376 6 2
shitohana
bsxplorer

Comprehensive tool for visualizing genome-wide cytosine data.

376 9 0
KarrLab
bpforms

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

360 7 2
ChaorongC
mesa-cfdna

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

341 3 1
FOXOBioScience
methylize

Python-based Illumina methylation array analysis software

324 16 6
anders-biostat
methscan

Python package with CLI for the analysis of single cell methylation data.

284 20 8
jmenendez98
hmmcdr

Accurately find CDRs and boundaries using a Hidden Markov Model

236 1 0
VIBTOBIlab
methurator

Methurator is a Python package designed to estimate CpGs saturation for DNA methylation sequencing data.

235 1 1
bioinfomaticsCSU
deepsignal

Detecting methylation using signal-level features from Nanopore sequencing reads

228 119 23
omics-datascience
modulector-sdk

An open platform which provides information about miRNAs and genes from different popular databases

179 5 1
MuteJester
pyncbi

A Python API library for exploration and data retrieval from NCBI

163 3 3
cangermueller
deepcpg

Deep neural networks for predicting CpG methylation

162 155 71
projectoriented
methylink

CLI tool to link methylation tags between two files

138 1 0