semvec/pypi-packages huggingface dataset:
scpeftreproduction 0.0.3
Parameter-Efficient Fine-Tuning Enhances Adaptation of Single Cell Large Language Model.
License: MIT
Requires Python: <3.11,>=3.7.12

# Reproduce for scPEFT

## Repository 

- Scripts to reproduce and visualise results obtained in the manuscript we have a dedicated
  repository [scPEFT_reproduction](https://github.com/BeacherKim/scPEFT_reproduction).

## Available datasets

### Datasets for cell type identification
- M.S.: [link](https://mailmissouri-my.sharepoint.com/:f:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/celltype_identification/ms?csf=1&web=1&e=udxeon)

- COVID-19: [link](https://mailmissouri-my.sharepoint.com/:f:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/celltype_identification/COVID-19?csf=1&web=1&e=WkrpQk)

- NSCLC: [link](https://mailmissouri-my.sharepoint.com/:f:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/celltype_identification/NSCLC?csf=1&web=1&e=yYgJkq)

### Datasets for cross species
- Monkey: [link](https://mailmissouri-my.sharepoint.com/:f:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/cross_species/MergedMonkey?csf=1&web=1&e=KcPkjK)

- C. Elegans: [link](https://mailmissouri-my.sharepoint.com/:f:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/cross_species/elegans?csf=1&web=1&e=GDmxFX)

- Mouse_10x: [link](https://mailmissouri-my.sharepoint.com/:f:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/cross_species/mouse_10x?csf=1&web=1&e=nz2NFP)

- Mouse_115746: [link](https://mailmissouri-my.sharepoint.com/:f:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/cross_species/mouse_115746?csf=1&web=1&e=T7hqEE)

- Mouse_smart: [link](https://mailmissouri-my.sharepoint.com/:f:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/cross_species/mouse_smart?csf=1&web=1&e=V4UERl)

### Datasets for marker gene detection
- COVID-19:[link](https://mailmissouri-my.sharepoint.com/:u:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/marker_gene_detection/COVID-19_test0.h5ad?csf=1&web=1&e=vWYHSb)

### Datasets for batch correction
- PBMC 10K:[link](https://mailmissouri-my.sharepoint.com/:u:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/batch_correction/PBMC_10K.h5ad?csf=1&web=1&e=MuONRg)

- Perirhinal Cortex: [link](https://mailmissouri-my.sharepoint.com/:u:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/batch_correction/Perirhinal%20Cortex.h5ad?csf=1&web=1&e=zVCyWk)

- covid_batch: [link](https://mailmissouri-my.sharepoint.com/:u:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/batch_correction/covid_subsampled.h5ad?csf=1&web=1&e=W3ngyI)

### Datasets for cell population discovery
- BMMC&CD34+ enriched data: [link](https://mailmissouri-my.sharepoint.com/:u:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/cell_population_discovery/immune.h5ad?csf=1&web=1&e=yTgdxl)


### Datasets for perturbation
- Adamson:[link](https://mailmissouri-my.sharepoint.com/:f:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/perturbation/adamson?csf=1&web=1&e=NINPQG)

- Norman:[link](https://mailmissouri-my.sharepoint.com/:f:/r/personal/hefe_umsystem_edu/Documents/scPEFT_datasets/perturbation/norman?csf=1&web=1&e=1ZMm3y)
computer-agent 0.1.1
Giving Agents Computers
License: MIT
Requires Python: >=3.8

# AES-Operator Agent backend

> ⚠️ **Early Development**: This API is currently experimental and not functional for development. It's a work in progress. Quickstart guide is not yet available.

## Environment Setup
```bash
python -m venv .venv
source .venv/bin/activate
pip install -r requirements.txt

# Required environment variables
export ANTHROPIC_API_KEY=your_key
export VNC_PASSWORD=secure_password
export ALLOWED_ORIGINS=http://localhost:3000
```

## Running the Agent
```bash
# Development mode with hot reload
uvicorn agent.main:app --reload --port 8000

# Production setup
docker build -t aes-agent .
docker run \
    -e ANTHROPIC_API_KEY=$ANTHROPIC_API_KEY \
    -v $HOME/.anthropic:/home/computeruse/.anthropic \
    -v $HOME/agent/logs:/home/computeruse/logs \
    -p 5900:5900 \
    -p 5000:5000 \
    -p 6080:6080 \
    -p 8080:8080 \
    -p 5001:5001 \
    -it computer-use-aesop
```

## API Endpoints
| Endpoint | Method | Description |
|----------|--------|-------------|
| `/api/agent` | POST | Main agent interaction |
| `/api/agent/stream` | GET | Event stream for UI |
| `/vnc` | GET | VNC websocket proxy |
brilws 3.9.4
bril worksuite
License: MIT

### BRIL Work Suite
python package for working with BRIL data 

#### Install

#### into brilconda virtual environment
pip install brilws
pip uninstall brilws

#### into local user area
export PYTHONPATH=$HOME/.local:$PYTHONPATH
pip install --install-option="--prefix=$HOME/.local" brilws
pip uninstall brilws

### Examples

### Build & Distribute
python setup.py sdist 
python setup.py register -r pypi
python setup.py sdist upload -r pypi