moodswh Goto Github PK

2018-rossi_genomeresearch

Genome-wide determinants of sequence-specific DNA binding of general regulatory factors

2020-hrpc-landscape

development version for the Landscape paper

broad_h3k4me3_datasets

cell2015human_netseq

chip-qc-tools

chip-seq-analysis

ChIP-seq analysis notes from Ming Tang

chip-seq_preprocess

A preprocessing pipeline for ChIP-seq, including alignment, quality control, and visualization.

chipseqspikeinfree

A Spike-in Free ChIP-Seq Normalization Approach for Detecting Global Changes in Histone Modifications

chromhmm_mesc_mm10

Chromatin States Map in mouse embryonic stem cell

chromstates

cpgisland2017

Code for Mike's CpG island noise manuscript

cruk-summer-school-2018

Summer school course materials collection

cshmm-for-time-series-scrna-seq

This is the code release for paper Continuous State HMMs for Modeling Time Series Single Cell RNA-Seq Data

dnmt3a_h2ak119ub

drb_tt-seq

Scripts for the analysis of TT-seq and DRB/TT-seq data.

enrichedheatmap

make enriched heatmap which visualizes the enrichment of genomic signals to specific target regions.

gallego_2019

histone-mark-imputation

Repo for the histone imputation project.

islet_cage

Analyses of human pancreatic islet CAGE data

jaeger_mediator_naturegenetics_2020

mesc_histone_chromhmm

milvus

A cloud-native vector database, storage for next generation AI applications

mimb2019netseq

NETseq alignment pipeline as described in Martell et al, Methods in Molecular Biology (in press)

mouse_aging_epigenomics_2018

net-and-rna-seq

NET-seq and RNA-seq analysis pipeline

netseq

Code for Bradner lab & Churchman lab netseq analysis

ngsplot

Quick mining and visualization of NGS data by integrating genomic databases

note

paired-seq

Paired-seq

peak-tool

Tool in c++ to parse the gencode database file and a list of ChIP-Seq peaks in bed format and report detailed promoter / intragenic / enhancer / super-enhancer / intergenic occupancy. The tool can also find neighboring peaks for multiple ChIP-Seq experiments.