semvec/pypi-packages huggingface dataset:
mhctyper 0.1.8
MHC Class I and II typer based on polysolver algorithm.
License: MIT
Requires Python: >=3.10
Keywords: HLA typing, bioinformatics, genomics, sequencing

# mhctyper

[![PyPI version](https://img.shields.io/pypi/v/mhctyper)](https://pypi.org/project/mhctyper/)
![Python versions](https://img.shields.io/pypi/pyversions/mhctyper)
![License](https://img.shields.io/pypi/l/mhctyper)

Polars-accelerated MHC class I and II typing based on Polysolver algorithm.

## Features

- Supports both class I and II typing with good
  [accuracy](https://github.com/svm-zhang/hla_benchmark?tab=readme-ov-file)
- Runtime speedup boosted by polars
- Minimum I/O operations
- Easy integration to workflow/pipeline with better CLI and proper packaging.

## Installation

mhctyper can be installed from PyPI:

```bash
pip install mhctyper
```

## Quick start

`mhctyper` simply requires 2 inputs:

- Alignment to HLA alleles in BAM format: `$bam`.
- Population frequency from the original `polysolver`: `HLA_FREQ.txt`.

```bash
mhctyper --bam "$bam" \
    --freq "HLA_FREQ.txt" \
    --outdir "$outdir" \
    --nproc 8
```

Please refer to [documentation](https://svm-zhang.github.io/mhctyper) for more details.
broccoli-ml 16.1.0
Some useful Pytorch models, circa 2025
License: MIT
Requires Python: >=3.8

# broccoli

Some useful PyTorch models, circa 2025.

![broccoli](broccoli.png "Image of a rockstar made of broccoli")

# Getting started

You can install broccoli with

```
pip install broccoli-ml
```

PyTorch is a peer dependency of `broccoli`, which means
  * You will need to make sure you have PyTorch installed in order to use `broccoli`
  * PyTorch will **not** be installed automatically when you install `broccoli`

We take this approach because PyTorch versioning is environment-specific and we don't know where you will want to use `broccoli`. If we automatically install PyTorch for you, there's a good chance we would get it wrong!

Therefore, please also make sure you install PyTorch.

# Usage examples

...