Topic: dna-methylation Goto Github
Some thing interesting about dna-methylation
Some thing interesting about dna-methylation
dna-methylation,Calculate DNA methylation age using Horvath 2013 method
Organization: aldringsvitenskap
dna-methylation,Modelling DNA methylation profiles
User: andreaskapou
dna-methylation,Takes output from DMRichR and performs statistical testing and visualization for CpG and genic annotation enrichments
User: ben-laufer
dna-methylation,A whole genome bisulfite sequencing (WGBS) pipeline for the alignment and QC of DNA methylation that goes from from raw reads (FastQ) to a CpG count matrix (Bismark cytosine reports)
User: ben-laufer
Home Page: https://ben-laufer.github.io/CpG_Me/
dna-methylation,A R package and executable for the preprocessing, statistical analysis, and downstream testing and visualization of differentially methylated regions (DMRs) from CpG count matrices (Bismark cytosine reports)
User: ben-laufer
Home Page: https://www.benlaufer.com/DMRichR/
dna-methylation,TFregulomeR reveals transcription factorsβ context-specific features and functions
User: benoukraflab
dna-methylation,The deconvR is an R package designed for analyzing deconvolution of the bulk sample(s) using an atlas of reference omic signature profiles and a user-selected model.
Organization: bimsbbioinfo
dna-methylation,An R package for weighted region comethylation network analysis
User: cemordaunt
Home Page: https://cemordaunt.github.io/comethyl/
dna-methylation,A pipeline to identify differentially-methylated regions from whole-genome bisulfite sequencing data
User: cemordaunt
dna-methylation,Analysis scripts for identification and visualization of Wilson disease-associated DNA methylation changes in human liver and blood
User: cemordaunt
dna-methylation,Tool to estimate purity of tumor samples exploiting DNA Methylation data
Organization: cgplab
dna-methylation,An R :package: for fast and flexible DNA methylation analysis
Organization: compepigen
Home Page: https://www.bioconductor.org/packages/release/bioc/html/methrix.html
dna-methylation,DNA methylation analysis notes from Ming Tang
User: crazyhottommy
dna-methylation,PipiDABS: A Comprehensive and User-Friendly Pipeline for Downstream DNA Methylation Analysis of High-throughput Bisulfite Sequencing Data.
User: ctlife
Home Page: https://github.com/CTLife/PipiDABS
dna-methylation,Annotating epigenetic variation among samples with region sets in R
Organization: databio
Home Page: http://code.databio.org/COCOA/
dna-methylation,:comet: Ultrafast DNA methylation heterogeneity calculation from bisulfite alignments (Lee et al., PLOS Computational Biology. 2023)
User: dohlee
dna-methylation,Code accompanying the findings in Duran-Ferrer 2020, Nat Cancer. The epiCMIT mitotic clock calculator and a Pan B-cell tumor classifier algorithm are provided.
User: duran-ferrerm
dna-methylation,Regional Association of Methylation variability with the Exposome and geNome (RAMEN) is an R package whose goal is to identify Variable Methylated Regions (VMRs) in microarray DNA methylation data. Additionally, using Genotype (G) and Environmental (E) data, it can identify which G, E, G+E or GxE model better explains this variability.
User: ericknavarrod
Home Page: https://ericknavarrod.github.io/RAMEN/
dna-methylation,Msuite2: integrated DNA methylation data analysis toolkit with enhanced performance
User: hellosunking
dna-methylation,DNA Methylation-based Prediction of Midlife Dementia Risk
User: jarnokoetsier
dna-methylation,methylR: a single shiny solution from sequencer data to pathway analysis
User: jd2112
Home Page: https://methylr.research.liu.se
dna-methylation,Quantify the Concurrence of DNA Methylation and De-methylation
User: jiejunshi
dna-methylation,A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.
Organization: jlab-code
dna-methylation,Julia module to perform haplotype allele-specific DNA methylation analysis.
User: jordiabante
Home Page: https://jordiabante.github.io/CpelAsm.jl/dev/
dna-methylation,Analysis of Single Molecule Footprinting (SMF) data for the analysis of DNA methylation, chromatin accessibility and TF binding. The repository contains all primary code to reproduce the main analyses for the publication "Single molecule footprinting identifies context-dependent regulation of enhancers by DNA methylation" (Kreibich et al., 2023)
Organization: krebslabrep
dna-methylation,NANOME pipeline (Nanopore long-read sequencing data consensus DNA methylation detection)
Organization: labshengli
Home Page: https://www.jax.org/research-and-faculty/faculty/sheng-li
dna-methylation,Toolkit for single-cell DNA methylation analysis.
User: lhqing
Home Page: https://lhqing.github.io/ALLCools/intro.html
dna-methylation,Epigenome-wide analysis of DNA methylation from Alzheimer's patients and unaffected controls
Organization: lieberinstitute
dna-methylation,Python package with CLI for downstream analysis of single cell methylation data.
User: lkremer
dna-methylation,Nanomotif - a tool for identifying methylated motifs in metagenomic samples
Organization: microbialdarkmatter
dna-methylation,DNA methylation-based classification of central nervous system tumours
User: mwsill
dna-methylation,Data and scripts from the manuscript: Gene expression and epigenetics reveal species-specific mechanisms acting upon common molecular pathways in the evolution of task division in bees
User: nat2bee
dna-methylation,Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
Organization: nf-core
Home Page: https://nf-co.re/methylseq
dna-methylation,:package: :microscope: R/methyvim: Targeted, Robust, and Model-free Differential Methylation Analysis
User: nhejazi
Home Page: https://code.nimahejazi.org/methyvim/
dna-methylation,tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies
User: nloyfer
dna-methylation,A chronological age predictor based on DNA methylation
User: qzhang314
dna-methylation,R package for DNA methylation analysis
Organization: sartorlab
dna-methylation,A pipeline for the integration of DNA methylation and hydroxymethylation data
Organization: sartorlab
dna-methylation,Pipeline for BS-Seq data based on snakemake
User: seb-mueller
dna-methylation,bicycle (bisulfite-based methylcytosine caller) is a next-generation sequencing bioinformatics pipeline able to perform a full DNA methylation level analysis
Organization: sing-group
Home Page: http://www.sing-group.org/bicycle
dna-methylation,A SnakeMake workflow to analyse whole genome bisulfite sequencing data from allopolyploids.
User: supermaxiste
dna-methylation,This is a R package that intends to perform all the features possible by tensor decomposition based unsupervised feature extraction
User: tagtag
dna-methylation,BioMM: Biological-informed Multi-stage Machine learning framework for phenotype prediction using omics data
Organization: transbiozi
dna-methylation,Correction of batch effects in DNA methylation data
Organization: uds-helms
Home Page: https://bioconductor.org/packages/release/bioc/html/BEclear.html
dna-methylation,ViewBS - a powerful toolkit for visualization of high-throughput bisulfite sequencing data
User: xie186
dna-methylation,Long sequencing reads classifier
User: yaoli3
dna-methylation,WGBS/NOMe-seq Data Processing & Differential Methylation Analysis
User: yupenghe
dna-methylation,Predicting regulatory DNA elements based on epigenomic signatures
User: yupenghe
dna-methylation,BISulfite-seq CUI Toolkit
Organization: zhou-lab
dna-methylation,πͺ SEnsible Step-wise Analysis of DNA MEthylation BeadChips
User: zwdzwd
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