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ArchR
ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)chromVAR
chromatin Variability Across Regions (of the genome!)NucleoATAC
nucleosome calling using ATAC-seq10x-scATAC-2019
Publication Page for Satpathy*, Granja* et al 2019MPAL-Single-Cell-2019
Publication Page for MPAL Paper 2019motifmatchr
Fast motif matching in Rbrainchromatin
Code used to analyze single cell RNA and ATAC sequencing in developing human brainNucleoATACR
R package for reading in & working with NucleoATAC outputsscScalpChromatin
ArchR_2020
Publication Page for ArchR Manuscript 2020ChrAccR
Analyzing chromatin accessibility data in RBrain_ASD
shareseq-pipeline
LKB1_2021
NEAT-seq_reproducibility
SpearATAC_MS_2021
ImagingStationController
Hardware-control software for a sequencing flowcell imaging station based on GAIIx componentspuflibs
amplicon-smf
Code for processing single-molecule footprinting data on synthetic amplicons (from Doughty*, Hinks*, Schaepe*, et al. 2024).snakeATAC_singularity
array_fitting_tools
ChrAccRex
Example data for ChrAccRnnn_paper
Analysis for "High-Throughput DNA melt measurements enable improved models of DNA folding thermodynamics".array_analysis
Snakemake pipeline for Greenleaf lab array preprocessing.matcha
Python library for fast barcode matching in sequencing dataLove Open Source and this site? Check out how you can help us