Skip to content

Commit

Permalink
docs: handy scripts
Browse files Browse the repository at this point in the history
  • Loading branch information
matq007 committed Feb 26, 2024
1 parent 28084ff commit cf9aca9
Showing 1 changed file with 29 additions and 0 deletions.
29 changes: 29 additions & 0 deletions docs/handy-scripts.md
Original file line number Diff line number Diff line change
@@ -0,0 +1,29 @@
# Handy scripts

## GEO submission

1. Login to GEO using Google
2. Login to danGPU and change path to where the files are located
1. It's either `~/Brickman/projects/` or `~/ucph/ndir/SUN-RENEW-Brickman/`
3. Download and update [GEO template](https://www.ncbi.nlm.nih.gov/geo/info/seq.html).
1. NOTE: always make sure you use the latest version
4. Click `Transfer files` and copy the login information for the ftp
5. Adjust the variable from above step

**NOTE**: before running the command below, make sure you are already in the
folder and you see all the folder/files you want to upload. It will make the
steps below simpler.

```bash
# we run tmux session in case we loose connection
tmux new -s geo

# this loges you to FTP
sftp [email protected]
password: <PASSWORD>

cd uploads/<FOLDER>
mkdir <RNAseq>
cd <RNAseq>
mput *
```

0 comments on commit cf9aca9

Please sign in to comment.