Discover uci-cbcl/EXTREME Open Source project

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Created over 11 years ago
Updated over 6 years ago

uci-cbcl

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An online EM implementation of the MEME model for fast motif discovery in large ChIP-Seq and DNase-Seq Footprinting data

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[MICCAI' 19] NoduleNet: Decoupled False Positive Reduction for Pulmonary Nodule Detection and Segmentation

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A hybrid convolutional and recurrent neural network for predicting the function of DNA sequences

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157

DeepLung

WACV18 paper "DeepLung: Deep 3D Dual Path Nets for Automated Pulmonary Nodule Detection and Classification"

Python

153

D-GEX

Deep learning for gene expression inference

UFold

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RP-Net

Code for Recurrent Mask Refinement for Few-Shot Medical Image Segmentation (ICCV 2021).

Python

FactorNet

A deep learning package for predicting TF binding

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PyLOH

Deconvolving tumor purity and ploidy by integrating copy number alterations and loss of heterozygosity

Python

tree-hmm

Tree hidden Markov model for learning epigenetic states in multiple cell types

Python

HLA-bind

Amino acid embedding and Convolutional Neural Network for HLA Class I-peptide binding prediction

Python

DeepCons

Understanding sequence conservation with deep learning

HTML

DeepEM-for-Weakly-Supervised-Detection

MICCAI18 DeepEM: Deep 3D ConvNets with EM for Weakly Supervised Pulmonary Nodule Detection

GBMCI

The implementation of gradient boosting machine for concordance index learning.

C++

esm-efficient

Python

SAILER

Jupyter Notebook

BioML

TEMT

Transcripts abundances estimation from heterogeneous tissue sample of RNA-Seq data (TEMT)

Python

ChestXRay

Jupyter Notebook

MixClone

A mixture model for inferring tumor subclonal populations

Python

SAILERX

Jupyter Notebook

scFAN

Python

genomix

Parallel genome assembly using Hyracks

Java

EpiOut

A statistical method to detect, analyze and visualize aberrations in chromatin accessibility (ATAC-seq, DNase-Seq) and quantify its effect on gene expression.

Python

Rainfall

MATLAB

RBPnet

Python

uci-cbcl/EXTREME

uci-cbcl

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