gokceneraslan

awesome-deepbio

A curated list of awesome deep learning applications in the field of computational biology

biorxiv-sanity-preserver

Web interface for browsing, search and filtering recent biorxiv submissions

dietnet

Diet networks in TensorFlow

dnaconvnet-notebook

Jupyter notebook for the application of convolutional neural nets to toy DNA sequence data

fit_nbinom

Negative binomial maximum likelihood estimate implementation in Python using L-BFGS-B

neuralnet_countmodels

Count models with TensorFlow and Keras

opentargets-genetics-python

Python wrapper for the Open Targets Genetics GraphQL API

pyannotables

Python package for conversions between ENSEMBL IDs and gene names (annotables + pyensembl)

pytelegram

Telegram Python bindings based on CFFI and vysheng's TGL

SparseMax.torch

Implementation attempt of "From Softmax to Sparsemax: A Sparse Model of Attention and Multi-Label Classification"

gokceneraslan/awesome-deepbio

A curated list of awesome deep learning applications in the field of computational biology

gokceneraslan/fit_nbinom

Negative binomial maximum likelihood estimate implementation in Python using L-BFGS-B

gokceneraslan/dnaconvnet-notebook

Jupyter notebook for the application of convolutional neural nets to toy DNA sequence data

gokceneraslan/pyannotables

Python package for conversions between ENSEMBL IDs and gene names (annotables + pyensembl)

gokceneraslan/opentargets-genetics-python

Python wrapper for the Open Targets Genetics GraphQL API

gokceneraslan/sctoolkit

gokceneraslan/minGPT

A minimal PyTorch re-implementation of the OpenAI GPT (Generative Pretrained Transformer) training

gokceneraslan/scanpy-tutorials

Scanpy Tutorials.

gokceneraslan/anndata

Annotated data.

gokceneraslan/bhc

Python implementation of Bayesian hierarchical clustering and Bayesian rose trees algorithms.

gokceneraslan/bio2bel

A Python framework for integrating biological databases and structured data sources in Biological Expression Language (BEL)

gokceneraslan/bioframe

Pandas utilities for tab-delimited and other genomic data files

gokceneraslan/disentangling-vae

Experiments for understanding disentanglement in VAE latent representations

gokceneraslan/dorothea-py

Dorothea package in Python

gokceneraslan/enformer-pytorch

Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch

gokceneraslan/genieclust

Genie++ Fast and Robust Hierarchical Clustering with Noise Point Detection - for Python and R

gokceneraslan/gokceneraslan

gokceneraslan/gReLU

gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.

gokceneraslan/hSBM_Topicmodel

Using stochastic block models for topic modeling

gokceneraslan/jovian

gokceneraslan/kopt

Hyper-parameter optimization for Keras

gokceneraslan/Nebulosa

R package to visualize gene expression data based on weighted kernel density estimation

gokceneraslan/scib

Benchmarking analysis of data integration tools

gokceneraslan/scipy

Scipy library main repository

gokceneraslan/scvelo

RNA Velocity generalized through dynamical modeling

gokceneraslan/supervenn

supervenn: precise and easy-to-read multiple sets visualization in Python

gokceneraslan/tracer

TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data

gokceneraslan/trVAE

Conditional out-of-distribution prediction

gokceneraslan/TwoSampleHC

Two-sample Higher Criticism test for frequency tables

gokceneraslan/vilma

polygenic scores using variational inference on GWAS summary statistics from multiple cohorts