CPU: Intel® Xeon® E5-2623 v3 (Quad-Core; 8 Threads)
Memory: 64 GB
Ubuntu 18.04.4 LTS
R version 3.6.2 (2019-12-12)
CPU usage is limited to 6 threads and memory to 32 GB where applicable
Last updated
Path
Purpose
/home/USER/tools
Software/tools
/home/USER/db/refanno
Reference genome, annotation and index
/home/USER/SSAPs
RNA-seq exercise on sessile serrated adenomas/polyps dataset
/home/USER/SSAPs/fastqs
FASTQ files
/home/USER/SSAPs/trimmed
Trimmed FASTQ files
/home/USER/SSAPs/salmon
Output from Salmon
/home/USER/SSAPs/star
Output from STAR
/home/USER/SSAPs/salmon_star
Output from STAR+Salmon
/home/USER/SSAPs/rsem_star
Output from STAR+RSEM
/home/USER/SSAPs/analysis
R analysis (DGE, DTE, and DTU)