
# genomics
Deep learning in genomics

<dl><dd><p align="center"><b>CCGAGGGCTATGGTTTGGAAGTTAGAACCCTGGGGCTTCTCGCGGACACC</b></p><dd></dl>
<p align="center"><img src="https://github.com/MicPie/genomics/blob/master/seq.png?raw=true" width=30%></p>

The notebooks in this repository are based on the [jupyter notebook](https://nbviewer.jupyter.org/github/abidlabs/deep-learning-genomics-primer/blob/master/A_Primer_on_Deep_Learning_in_Genomics_Public.ipynb) from the publication ["A primer on deep learning in genomics"](https://www.nature.com/articles/s41588-018-0295-5) but use the [PyTorch](https://pytorch.org) and [fastai](https://www.fast.ai) library.

**Notebooks**
* [Basic model with PyTorch](https://nbviewer.jupyter.org/github/MicPie/genomics/blob/master/DL_Genomics_v8_basic-pytorch.ipynb)
* [Basic model with PyTorch and fastai](https://nbviewer.jupyter.org/github/MicPie/genomics/blob/master/DL_Genomics_v8_basic-fastai.ipynb)
* [Custom ResNet model with PyTorch and fastai](https://nbviewer.jupyter.org/github/MicPie/genomics/blob/master/DL_Genomics_v8_resnet-fastai.ipynb)

	a/README.md		b/README.md
1	# genomics	1	# genomics
2	Deep learning in genomics	2	Deep learning in genomics
3		3
4	<dl><dd><p align="center"><b>CCGAGGGCTATGGTTTGGAAGTTAGAACCCTGGGGCTTCTCGCGGACACC</b></p><dd></dl>	4	<dl><dd><p align="center"><b>CCGAGGGCTATGGTTTGGAAGTTAGAACCCTGGGGCTTCTCGCGGACACC</b></p><dd></dl>
5	<p align="center"><img src="https://github.com/MicPie/genomics/blob/master/seq.png" width=30%></p>	5	<p align="center"><img src="https://github.com/MicPie/genomics/blob/master/seq.png?raw=true" width=30%></p>
6		6
7	The notebooks in this repository are based on the [jupyter notebook](https://nbviewer.jupyter.org/github/abidlabs/deep-learning-genomics-primer/blob/master/A_Primer_on_Deep_Learning_in_Genomics_Public.ipynb) from the publication ["A primer on deep learning in genomics"](https://www.nature.com/articles/s41588-018-0295-5) but use the [PyTorch](https://pytorch.org) and [fastai](https://www.fast.ai) library.	7	The notebooks in this repository are based on the [jupyter notebook](https://nbviewer.jupyter.org/github/abidlabs/deep-learning-genomics-primer/blob/master/A_Primer_on_Deep_Learning_in_Genomics_Public.ipynb) from the publication ["A primer on deep learning in genomics"](https://www.nature.com/articles/s41588-018-0295-5) but use the [PyTorch](https://pytorch.org) and [fastai](https://www.fast.ai) library.
8		8
9	Notebooks	9	Notebooks
10	* [Basic model with PyTorch](https://nbviewer.jupyter.org/github/MicPie/genomics/blob/master/DL_Genomics_v8_basic-pytorch.ipynb)	10	* [Basic model with PyTorch](https://nbviewer.jupyter.org/github/MicPie/genomics/blob/master/DL_Genomics_v8_basic-pytorch.ipynb)
11	* [Basic model with PyTorch and fastai](https://nbviewer.jupyter.org/github/MicPie/genomics/blob/master/DL_Genomics_v8_basic-fastai.ipynb)	11	* [Basic model with PyTorch and fastai](https://nbviewer.jupyter.org/github/MicPie/genomics/blob/master/DL_Genomics_v8_basic-fastai.ipynb)
12	* [Custom ResNet model with PyTorch and fastai](https://nbviewer.jupyter.org/github/MicPie/genomics/blob/master/DL_Genomics_v8_resnet-fastai.ipynb)	12	* [Custom ResNet model with PyTorch and fastai](https://nbviewer.jupyter.org/github/MicPie/genomics/blob/master/DL_Genomics_v8_resnet-fastai.ipynb)