https://github.com/iglee/hmm-compbio
https://github.com/iglee/hmm-compbio
computational-biology gccontent hmm
Last synced: about 1 year ago
JSON representation
- Host: GitHub
- URL: https://github.com/iglee/hmm-compbio
- Owner: iglee
- Created: 2020-11-18T12:07:30.000Z (over 5 years ago)
- Default Branch: master
- Last Pushed: 2020-11-25T07:40:07.000Z (over 5 years ago)
- Last Synced: 2024-11-06T17:50:38.830Z (over 1 year ago)
- Topics: computational-biology, gccontent, hmm
- Language: Python
- Homepage:
- Size: 694 KB
- Stars: 0
- Watchers: 1
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
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README
# 2-state HMM for locating G-C Content
## Requirements to Download
```
pip install -r requirements.txt
```
## Data
Genome of Methanocaldococcus jannaschii
web URL: https://www.ncbi.nlm.nih.gov/genome/?term=Methanocaldococcus+jannaschii
## How to run
To run the training for HMM, run:
```
python src/train.py -fi data/GCF_000091665.1_ASM9166v1_genomic.fna -fo output/output.txt -gt data/GCF_000091665.1_ASM9166v1_genomic.gff
```