Software/Tools used during the course
| Software | Version (if not latest) | Module | Notes |
|---|---|---|---|
| R Programming Language | 4.4.1 | Module Name | - |
| R package ISwR | 2.0-8 | Module Name | Depends on R (≥ 2.6.0) |
| R package TwoSampleMR | v0.3.2. | Module Name | - |
| R package MRInstruments | 0.3.2 | Module Name | - |
| R package RadialMR | 1.1 | Module Name | - |
| R package MendelianRandomization | 0.10.0 | Module Name | Depends on R (≥ 3.0.1) |
| Perl | 5.40 | Module Name | GitHub Repo |
| Python Programming Language | 5.10.1+ | Module Name | - |
| VCFtools | 3.0 | Module Name | GitHub Repo |
| BCFtools | 1.4.1 | Module Name | - |
| SNPTEST | 2.5.2 | Module Name | - |
| META | 1.7 | Module Name | - |
| Plink | 1.9 | Module Name | Documentaion |
| GCTA | 1.9.1 beta1 | Module Name | Documentaion |
| FaST-LMMl | 2.07 | Module Name | Documentaion |
| SHAPEIT2 | Version Details | Module Name | Documentaion |
| IMPUTE2 | Version Details | Module Name | Documentaion |
| SAIGE | 1.0.0 | Module Name | - |
We are currently using Oracle VM Virtual Box (https://www.virtualbox.org/) to deliver Informatics, you can find Virtual Box Guides below:
Virtual Machine SetUp Guide for Intel-Mac and Windows.
The Host OS Requirements for Virtual Box
- RAM requirement: 8GB (preferably 12GB)
- Processor requirement: 4 processors (preferably 8)
- Hard disk space: 200GB
- Admin rights to the computer
Note: Please be aware that Virtual Box is currently incompatible with M1/M2/M3 chips on MacBook. It is exclusively designed for use on Intel-based MacBooks. The current version in use is Virtual Box 7.0.
The course data are free to reuse and adapt with appropriate attribution. All course data in these repositories are licensed under the Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0).
Take a look what courses are coming up at Wellcome Connecting Science Courses & Conference Website.
Wellcome Connecting Science GitHub Home Page
For more information or queries, feel free to contact us via the Wellcome Connecting Science website.
Find us on socials Wellcome Connecting Science Linktr