adeschen

arcasHLATools

Tools to easy the extraction and manipulation of HLA typing produced by arcasHLA software

consensusSeekeR

This R package compares genomic positions and genomic ranges from multiple experiments to extract common regions. The size of the analyzed region is adjustable as well as the number of experiences in which a feature must be present in a potential region to tag this region as a consensus region. Tested on ChIP-Seq peaks and nucleosome positions.

docker-arcasHLA

Docker image for arcasHLA software

enrichViewNet

From functional enrichment results to biological networks

HLAClustRView

R package specialized in HLA typing clustering and visualization based on specific similarity metrics.

methylInheritance

Bioconductor Package - Permutation-Based Analysis associating Conserved Differentially Methylated Elements Across Multiple Generations to a Treatment Effect

RJMCMCNucleosomes

Bioconductor Package - Genome-Wide Nucleosome Positioning in R with an optimized section in C++

SignatureHeatmap

R package to create heatmaps using signature gene list and transcriptomic data

similaRpeak

Bioconductor Package - Metrics to estimate the level of similarity between two ChIP-Seq profiles

CNVMetrics

R Package to compare copy number variant (CNV) results from multiple samples/methods

adeschen/similaRpeak

Bioconductor Package - Metrics to estimate the level of similarity between two ChIP-Seq profiles

adeschen/enrichViewNet

From functional enrichment results to biological networks

adeschen/SignatureHeatmap

R package to create heatmaps using signature gene list and transcriptomic data

adeschen/arcasHLATools

Tools to easy the extraction and manipulation of HLA typing produced by arcasHLA software

adeschen/consensusSeekeR

This R package compares genomic positions and genomic ranges from multiple experiments to extract common regions. The size of the analyzed region is adjustable as well as the number of experiences in which a feature must be present in a potential region to tag this region as a consensus region. Tested on ChIP-Seq peaks and nucleosome positions.

adeschen/docker-arcasHLA

Docker image for arcasHLA software

adeschen/HLAClustRView

R package specialized in HLA typing clustering and visualization based on specific similarity metrics.

adeschen/arcasHLA

Fast and accurate in silico inference of HLA genotypes from RNA-seq

adeschen/CNprep

Processing DNA Copy Number (CN) Data for Detection of CN Events

adeschen/methInheritSim

Bioconductor Package - Whole-Genome Inherited Bisulphite Sequencing Data Simulation

adeschen/methylInheritance

Bioconductor Package - Permutation-Based Analysis associating Conserved Differentially Methylated Elements Across Multiple Generations to a Treatment Effect

adeschen/nucleoSimShiny

Interactive generation of nucleosomes maps using Shiny framework and based on Bioconductor nucleoSim package

adeschen/RJMCMCNucleosomes

Bioconductor Package - Genome-Wide Nucleosome Positioning in R with an optimized section in C++

adeschen/CNprep_test

CNprep — Pre-process DNA Copy Number (CN) Data for Detection of CN Events

adeschen/CNVMetrics

R Package to compare copy number variant (CNV) results from multiple samples or methods

adeschen/datasharing

The Leek group guide to data sharing

adeschen/ExData_Plotting1

Plotting Assignment 1 for Exploratory Data Analysis

adeschen/GeneiASE_Tools

R scripts to process input/output related to GeneiASE software

adeschen/GettingandCleaningData

Getting and Cleaning Data Project

adeschen/HLA

xHLA: Fast and accurate HLA typing from short read sequence data

adeschen/learningSlidify

This repo is mainly for leaning slidify from cousera course Data Science

adeschen/MachineLearningWeightLifting

Qualitative Activity Recognition of Barbell Lifting Exercises

adeschen/mouseScPDACshiny

adeschen/mpileupTools

This python script parses a mpileup file to extract the coverage of each base at each position.

adeschen/nucleoSim

Bioconductor Package - Simulate synthetic nucleosome maps

adeschen/OrganoidsToolBox

Enabling organoid analyses using drug sreening, RNA-seq, exome-seq

adeschen/PairedPermutationTest

R package to carry out permutation tests on paired observations

adeschen/RAIDS

Accurate and robust inference of genetic ancestry from cancer-derived molecular data across genomic platforms

adeschen/subtypeOrganizer

Subtype classification through multimodal distribution