Metadata-Version: 2.4
Name: spectrseqtools
Version: 0.1.2
Summary: SpectrSeqTools is a fully automatic analysis platform for sequencing small RNA molecules including 144 known post translational modifications measured via LC-MS/MS data.
Project-URL: Homepage, https://github.com/spectrseq/spectrseqtools
Author-email: Laura Christine Kuehle <laura.kuehle@mpi-dortmund.mpg.de>, Juan Antonio Magalang <juan.magalang@mpi-dortmund.mpg.de>, Moshir Harsh <btemoshir@gmail.com>, Johannes Koester <johannes.koester@uni-due.de>
License-Expression: GPL-3.0-only
License-File: LICENSE
Classifier: License :: OSI Approved :: GNU General Public License v3 (GPLv3)
Classifier: Operating System :: OS Independent
Classifier: Programming Language :: Python :: 3
Requires-Python: <3.14,>=3.12
Requires-Dist: altair<6.0,>=5.4.1
Requires-Dist: clr-loader<0.3,>=0.2.7.post0
Requires-Dist: dbscan1d<0.3,>=0.2.3
Requires-Dist: loguru<0.8,>=0.7.2
Requires-Dist: ms-deisotope<0.1,>=0.0.60
Requires-Dist: numpy<3.0,>=2.2.3
Requires-Dist: platformdirs<5.0,>=4.3.8
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Requires-Dist: pulp<3.0,>=2.3.0
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Requires-Dist: pyyaml<7.0,>=6.0.2
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Requires-Dist: typed-argument-parser<2.0,>=1.10.1
Description-Content-Type: text/markdown

# SpectrSeqTools

SpectrSeqTools is a fully automatic analysis platform for sequencing small RNA molecules including 144 known post translational modifications measured via LC-MS/MS data.

## Installation

We recommend installing SpectrSeqTools via the pixi package manager:

```bash
pixi global install -c conda-forge -c bioconda spectrseqtools
```

Alternatively, a conda environment (for use with e.g. Snakemake) can de defined as follows

```yaml
channels:
  - conda-forge
  - bioconda
  - nodefaults
dependencies:
  - spectrseqtools
```
For reproducibility, make sure to specify the version you want to use next to the package name above.

## Usage

After installing, run

```bash
spectrseqtools --help
```

to get help using SpectrSeqTools.
More extensive documentation with examples will appear here soon.
