Publications by Sergio Garcia-Moreno Alcantara (

Document

Author: Sergio Garcia-Moreno Aim Cluster TFIID at different promoter groups Environment setup Loading libraries and scripts Loading BigWigs samples <- load_bigwig(sample_list) names(samples) <- sample_list$short_name bigwig_list_dmso <- samples[grep("dmso_", names(samples))] %>% .[!duplicated(.)] bigwig_list_tri <- samples[grep("triptolide_",...

213 sym R (15138 sym/23 pcs) 16 img

Analyzing upstream and downstream TBP occupancy at different levels of promoter activity

Author: Sergio Garcia-Moreno Aim The aim of this analysis is to test whether the downstream footprint of TBP correlates with promoter activity Environment setup Loading libraries and scripts Loading BigWigs and dm6 TSSs samples <- load_bigwig(sample_list) names(samples) <- sample_list$short_name bigwig_list_dmso <- samples[grep("dmso_", names...

268 sym R (16044 sym/10 pcs) 4 img

Document

Amazon EC2 AMI setup notes We start with the Ubuntu 16.04 EBS-backed AMI for the us-east-1 region. Boot AMI AMI was started as type c4xlarge with a 250GB EBS boot volume. This instance type has 16 CPU cores and ~30GB of memory. Set up data directory sudo mkdir /data sudo chown -R ubuntu:ubuntu /data Install R and Bioconductor Add the line belo...

1235 sym R (8771 sym/22 pcs)