Metadata-Version: 2.1
Name: MetaomeStats
Version: 0.4
Summary: Scripts for calculating statistics from FASTA sequences
Home-page: https://github.com/raw-lab/metaome_stats
Author: Jose Luis Figueroa III, Richard Alan White III
Author-email: jlfiguer@uncc.edu
License: MIT License
Platform: Unix
Classifier: Programming Language :: Python
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: Unix
Description-Content-Type: text/markdown
License-File: LICENSE.txt

# Metaome Stats: Calculating denovo assembly statistics from metaomes 

================================================

## Installing

- pip installation <br /> 
`pip install MetaomeStats`

- conda installation <br /> 
`conda install -c bioconda MetaomeStats`

- source (github)

```bash
git clone https://github.com/raw-lab/metaome_stats
cd metaome_stats
python setup.py
```

-------

## Usage examples

```bash
countAssembly.py -i 100 --fasta ecoli_Miseq_Assembly.fa
```

Main options:

```bash
usage: countAssembly.py -i INTERVAL -f FASTA [-r REF] [-s SIZE] [-h]

required arguments:
  -i INTERVAL, --interval INTERVAL
                        interval size in # of residues
  -f FASTA, --fasta FASTA
                        fasta file or folder

optional arguments:
  -r REF, --ref REF     reference genome
  -s SIZE, --size SIZE  reference genome size
  -h, --help
```

-------

## Input formats

- FASTA files without quality scores (.fasta, .fa, .fna, .ffn format)

-------

## Citing Metaome Stats

If you are publishing results obtained using Metaome Stats, please cite:

## CONTACT

-------
The informatics point-of-contact for this project is [Dr. Richard Allen White III](https://github.com/raw-lab).  
If you have any questions or feedback, please feel free to get in touch by email.  
Dr. Richard Allen White III - rwhit101@uncc.edu.  
Jose Figueroa - jlfiguer@uncc.edu.  
Or [open an issue](https://github.com/raw-lab/metaome_stats/issues).


