Pinned Repositories
CMPyMOL
CMPyMOL is an add-on software to molecular visualization program PyMOL. It combines the protein 3D visualization capabilities of PyMOL and the protein's 2D contact map with an interactive interface for scientific analysis. This software is freely distributed under the MIT license for Windows, Linux and Mac OS X platforms.
DeepCount
Deep Neural Network trained to count single-molecule photobleaching steps.
DEEPN
A Bioinformatics software workflow to process data generated by Illumina next-gen sequencing technique.
deepncli
GridMAT-MD-parallel
A parallel algorithm to calculate area per lipid headgroup (APL) and bilayer thickness in molecular simulations of lipid bilayers. Originally developed by Bevan Lab at Virginia Tech
gromacs-gamd
Gaussian Accelerated Molecular Dynamics Implementation in Gromacs
Gyration_tensor
This PyMOL plugin calculates and visualizes the gyration tensors for each chain of a given protein. (based on geometry)
Interlink
A tool to identify intra-protein crosslinks using non-canonical amino acids and mass spectroscopy
MALTA
A Calculator for Easy Estimation of Coverage with shRNA, CRISPR, and cDNA libraries
MAPster
A front-end GUI to map NGS DNA sequencing data using HISAT backend tool. This software offers robust seamless queueing of the mapping operations along with parameter memory for quick and easy customization.
emptyewer's Repositories
emptyewer/CMPyMOL
CMPyMOL is an add-on software to molecular visualization program PyMOL. It combines the protein 3D visualization capabilities of PyMOL and the protein's 2D contact map with an interactive interface for scientific analysis. This software is freely distributed under the MIT license for Windows, Linux and Mac OS X platforms.
emptyewer/gromacs-gamd
Gaussian Accelerated Molecular Dynamics Implementation in Gromacs
emptyewer/DEEPN
A Bioinformatics software workflow to process data generated by Illumina next-gen sequencing technique.
emptyewer/GridMAT-MD-parallel
A parallel algorithm to calculate area per lipid headgroup (APL) and bilayer thickness in molecular simulations of lipid bilayers. Originally developed by Bevan Lab at Virginia Tech
emptyewer/Gyration_tensor
This PyMOL plugin calculates and visualizes the gyration tensors for each chain of a given protein. (based on geometry)
emptyewer/kaggle-rsna2018
Team ChallengePneumo Solution for RSNA Pneumonia Detection Challenge
emptyewer/MAPster
A front-end GUI to map NGS DNA sequencing data using HISAT backend tool. This software offers robust seamless queueing of the mapping operations along with parameter memory for quick and easy customization.
emptyewer/DeepCount
Deep Neural Network trained to count single-molecule photobleaching steps.
emptyewer/deepncli
emptyewer/Interlink
A tool to identify intra-protein crosslinks using non-canonical amino acids and mass spectroscopy
emptyewer/MALTA
A Calculator for Easy Estimation of Coverage with shRNA, CRISPR, and cDNA libraries
emptyewer/Autoclick
A tool for repeated automatic clicking of screen locations.
emptyewer/Awesome-CGM
List of CGM datasets
emptyewer/blastquery
emptyewer/Codon_optimization
Methodology to optimize codons for efficient expression in a non-native expression system
emptyewer/DeepGene
Experiments with gene sequences and neural networks
emptyewer/Fytt
Fit fluorescence spectra by linear combination of its components
emptyewer/Glimpse
Gelles Labrotory microscopy program
emptyewer/Lambda2
Control Software in LabVIEW to operate Lambda2 single-molecule TIRF microscope at Dr. Janice Robertson's laboratory in University of Iowa
emptyewer/Photobleaching-Step-Detection
Matlab script to autodetect photobleaching steps from single-molecule trajectories
emptyewer/PyInterlink
A tool to identify intra-protein crosslinks using non-canonical amino acids and mass spectroscopy
emptyewer/R-FCN.pytorch
A Pytorch Implementation of R-FCN/CoupleNet
emptyewer/Rasbase
Ras-GTPase Interactome Database
emptyewer/stable-baselines
A fork of OpenAI Baselines, implementations of reinforcement learning algorithms
emptyewer/statmaker
Dynamic enrichment for evaluation of protein networks
emptyewer/Stop-Codon-Identification
emptyewer/Testing
emptyewer/uwsgi-nginx-docker
Docker image with uWSGI and Nginx for applications in Python (as Flask) in a single container. Optionally with Alpine Linux.
emptyewer/yadsa
Yet Another Data Structure and Algorithms library