We are starting on the 13th of October 2020 a series of bioinformatics sessions for the VDR lab members, covering the command line (bash) and several genomics techniques used in the lab!
| Date | Session | Topic |
|---|---|---|
| 13-Oct-2020 | Session 1 | Bash command line scripting + totoro + UCSC genome browser |
| 20-Oct-2020 | Session 2 | ChIP-seq 1 |
| 27-Oct-2020 | Session 3 | ChIP-seq 2 |
| 3-Nov-2020 | Session 4 | ChIP-seq 3 |
| 10-Nov-2020 | Session 5 | ChIP-seq 4 |
| 17-Nov-2020 | Session 6 | ChIP-seq 5 |
| 30-Nov-2020 | Session 7 | ATAC-seq 1 |
| 15-Dec-2020 | Session 8 | ATAC-seq 2 |
| 12-Jan-2021 | [Session 9] | ATAC-seq 3 |
| 19-Jan-2021 | [Session 10] | [4C-seq 1] |
| 26-Jan-2021 | [Session 11] | [4C-seq 2] |
| 2-Feb-2021 | [Session 12] | [4C-seq 3] |
| 9-Feb-2021 | [Session 13] | [HiChIP-seq / HiC 1] |
| 16-Feb-2021 | [Session 14] | [HiChIP-seq / HiC 2] |
| 23-Feb-2021 | [Session 15] | [HiChIP-seq / HiC 3] |
| 2-Mar-2021 | [Session 16] | [RNA-seq 1] |
| 9-Mar-2021 | [Session 17] | [RNA-seq 2] |
| 16-Mar-2021 | [Session 18] | [RNA-seq 3] |
| 23-Mar-2021 | [Session 19] | Round-up / discussion |
Doubts / Questions / Bugs: please add a new issue on ISSUES
More material: [Bash commands] [Shell filesystem] [grep+pipe] [for loops] [file permissions]
-another example of HPC system
For processing in totoro, follow the step-by-step guide CommandLine_totoro_ChIPseq
For processing in totoro, follow the step-by-step guide ATACseq_commandLine_simple