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builder

Continuous builder and binary build scripts for pytorch

building-and-interpreting-random-forest-based-cell-penetrating-peptide-prediction-model

Targeting intracellular pathways with peptide drugs is becoming increasingly desirable but often limited in application due to their poor cell permeability. Understanding cellular permeability of peptides remains a major challenge with very little structure-activity relationship known. Fortunately, there exist a class of peptides called Cell-Penetrating Peptides (CPPs), which have the ability to cross cell membranes and are also capable of delivering biologically active cargo into cells. Discovering patterns that make peptides cell-permeable have a variety of applications in drug delivery. In the current study, we build prediction models for CPPs exploring features covering a range of properties based on amino acid sequences, using Random forest classifiers which are often more interpretable than other ensemble machine learning algorithms. While obtaining prediction accuracies of ~96%, we also interpret our prediction models using TreeInterpreter, LIME and SHAP to decipher the contributions of important features and optimal feature space for CPP class. We propose that our work might offer an intuitive guide for incorporating features that impart cell-penetrability into the design of novel CPPs.

buildout

buku

:bookmark: Browser-independent bookmark manager

bullet3

Bullet Physics SDK: real-time collision detection and multi-physics simulation for VR, games, visual effects, robotics, machine learning etc.

byol-pytorch

Usable Implementation of "Bootstrap Your Own Latent" self-supervised learning, from Deepmind, in Pytorch

byt5

c11-queues

A single producer single - single consumer queue implemented by a ring buffer with C11's 'stdatomic.h'

c2rust

Migrate C code to Rust

c3c

Compiler for the C3 language

c3pred

C3Pred is an easy-to-use software tool, to predict the transport effectivity of cell-penetrating peptides (CPP)

ca-backbone-prediction

Deep Learning for Ca Backbone Prediction from High Resolution CryoEM Data

caer

A lightweight, GPU-accelerated Computer Vision library for high-performance AI research.

caffe

Caffe: a fast open framework for deep learning.

caffe-keypoint-rcnn

Resnet-50 + FPN + Keypoint RCNN

caffe-mnist-test

just test the mnist in caffe.

caffe2

caffe2 from pytorch

caffe2.github.io

The caffe2 website.

calories-alert-kafka

Simple alert system implemented in Kafka and Python

camd

Agent-based sequential learning software for materials discovery

camus

LinkedIn's previous generation Kafka to HDFS pipeline.

cancer_data

A unified downloader+preprocessor for cancer genomics datasets.

cando

Computational Analysis of Novel Drug Opportunities

canister

a bottle wrapper to provide logging, sessions and authentication

capsgnn

A PyTorch implementation of "Capsule Graph Neural Network" (ICLR 2019).

captum

Model interpretability and understanding for PyTorch

care-gnn

Code for CIKM 2020 paper Enhancing Graph Neural Network-based Fraud Detectors against Camouflaged Fraudsters

cargo

The Rust package manager

carla

Open-source simulator for autonomous driving research.

casparcg_server

CasparCG Server is a Windows and Linux software used to play out professional graphics, audio and video to multiple outputs. It has been in 24/7 broadcast production since 2006. Ready-to-use downloads are available at the official site http://casparcg.com.