Add rule to make R project for downstream analyses

[genomics-kl]

• initializes renv
• symlinks files from pipeline results for further analyses

[genomics-kl]

This is working now. Currently, it is recommended to use the default settings in the config file for the parameters pertaining to renv.

Additional work may include:

• incorporate the DE and pathway analyses in the R project
• how does the website fit in? How about Rmd files just to make figures based on the DE and pathway analyses results?
• Standardize renv lock files instead of just installing whatever version is on the user library. See Maintain renv lock files for workflows in general? #31

[genomics-kl]

Different versions of OS on bbcrstudio and on the bbc nodes causing issues because of the separate folders for the two OS versions in renv/library/.

submit node:

kin.lau@submit001:rnaseq_workflow_devel$ hostnamectl
Static hostname: submit001
Icon name: computer-container
Chassis: container ☐
Machine ID: af36a7f012c24855a1163100947597d7
Boot ID: 06350364dcb84cf296a58b69172509f3
Virtualization: docker
Operating System: AlmaLinux 9.4 (Seafoam Ocelot)
CPE OS Name: cpe:/o:almalinux:almalinux:9::baseos
Kernel: Linux 5.14.0-162.6.1.el9_1.0.1.x86_64
Architecture: x86-64
Firmware Version: 1.0b

bbcrstudio:

kin.lau@compute097:research$ hostnamectl
Static hostname: compute097
Icon name: computer-container
Chassis: container ☐
Machine ID: 7752ed6661314dcf9cf562f95abc2f2a
Boot ID: 4aa4aba8aa5542c9a909b4c91f57affe
Virtualization: docker
Operating System: AlmaLinux 9.2 (Turquoise Kodkod)
CPE OS Name: cpe:/o:almalinux:almalinux:9::baseos
Kernel: Linux 5.14.0-162.6.1.el9_1.0.1.x86_64
Architecture: x86-64
Firmware Version: 2.1