Update README.md

README.md

@@ -4,7 +4,7 @@ Wuming Gong, Nikita Dsouza and Daniel J. Garry
 
 ## Abstract
 
-Assay for Transposase-Accessible Chromatin with sequencing (ATAC-seq) reveals chromatin accessibility across the genome. Currently no method specifically detects differential chromatin accessibility. Here, SeATAC uses a conditional variational autoencoder model to learn the latent representation of ATAC-seq V-plots and outperforms MACS2 and NucleoATAC on six separate tasks. Applying SeATAC to several pioneer factor induced differentiation or reprogramming ATAC-seq datasets suggests that induction of these factors not only relaxes the closed chromatin but also decreases chromatin accessibility of 20% to 30% of their target sites. SeATAC is a novel tool to accurately reveal genomic regions with differential chromatin accessibility from ATAC-seq data. SeATAC is available at https://github.com/gongx030/seatac as an R package. The preprint can be found at [bioRxiv](https://www.biorxiv.org/content/10.1101/2022.04.25.489439v1).  
+Assay for Transposase-Accessible Chromatin with sequencing (ATAC-seq) reveals chromatin accessibility across the genome. Currently no method specifically detects differential chromatin accessibility. Here, SeATAC uses a conditional variational autoencoder model to learn the latent representation of ATAC-seq V-plots and outperforms MACS2 and NucleoATAC on six separate tasks. Applying SeATAC to several pioneer factor induced differentiation or reprogramming ATAC-seq datasets suggests that induction of these factors not only relaxes the closed chromatin but also decreases chromatin accessibility of 20% to 30% of their target sites. SeATAC is a novel tool to accurately reveal genomic regions with differential chromatin accessibility from ATAC-seq data. SeATAC is available at https://github.com/gongx030/seatac as an R package. The preprint can be found at [bioRxiv](https://www.biorxiv.org/content/10.1101/2022.04.25.489439v1).  Additionally, SeATAC has been used to investigate how Etv2 shape the chromatin landscape in [MEF reprogramming](https://www.nature.com/articles/s41556-022-00901-3) and [limb development](https://www.nature.com/articles/s41467-022-31848-6). 
 
 ## Main Figures