xinyu-dev

alphafold_installation

The following is a step-by-step guide to install the alphafold 2 on an AWS EC2 Ubuntu instance

annotate_v

Antibody Annotation - Annotate VH and VL sequences (FR and CDR) in Python

annotate_v-for-Pymol

Antibody Annotation - Annotate antibody VH and VL sequences (FR and CDR) in Pymol

bionemo-demo

Demo & tip for using BioNeMo

cas-collaboration

Collaborative projects for the Chinese Antibody Society

cas-covid-mab-tracker

Python script using API of ClincialTrials.gov to retrieve therapeutic antibodies for the COVID-19 Antibody Tracker of the Chinese Antibody Society. Tracker: https://chineseantibody.org/covid-19-track/

hopp-woods

Prediction of hydrophilicity & antigenic determinants from protein sequences

igblast

Detailed explanation on how to setup database for NCBI IgBlast executable, and using it in Python

signal_peptide_mutagensis

repository for signal peptide mutagenesis paper

TransMHCII

Code repository for manuscript: TransMHCII: a novel MHC-II binding prediction model built using a protein language model and an image classifier

xinyu-dev/igblast

Detailed explanation on how to setup database for NCBI IgBlast executable, and using it in Python

xinyu-dev/annotate_v

Antibody Annotation - Annotate VH and VL sequences (FR and CDR) in Python

xinyu-dev/cas-covid-mab-tracker

Python script using API of ClincialTrials.gov to retrieve therapeutic antibodies for the COVID-19 Antibody Tracker of the Chinese Antibody Society. Tracker: https://chineseantibody.org/covid-19-track/

xinyu-dev/TransMHCII

Code repository for manuscript: TransMHCII: a novel MHC-II binding prediction model built using a protein language model and an image classifier

xinyu-dev/alphafold_installation

The following is a step-by-step guide to install the alphafold 2 on an AWS EC2 Ubuntu instance

xinyu-dev/cas-collaboration

Collaborative projects for the Chinese Antibody Society

xinyu-dev/hopp-woods

Prediction of hydrophilicity & antigenic determinants from protein sequences

xinyu-dev/PatentSeq

Converts image protein sequences in patents (3-letter coded) to 1-letter coded fasta format

xinyu-dev/annotate_v-for-Pymol

Antibody Annotation - Annotate antibody VH and VL sequences (FR and CDR) in Pymol

xinyu-dev/bionemo-demo

Demo & tip for using BioNeMo

xinyu-dev/bvp_manuscript

Code for BVP manuscript

xinyu-dev/cas

List of my volunteer projects at the Chinese Antibody Society. https://xinyu-dev.github.io/cas/

xinyu-dev/country-json

A simple data of the world by country each in JSON format.

xinyu-dev/general-image-processing

A collection of Python scripts for batch-processing images and facial recognition. 1) “Logo Resizer”: dynamically resizes images to fit bounding box. 2) “Headshot Cropper”: identifies faces using CV2, then extracts faces into round thumbnail images and resizes them. 3) “Volunteer Certificate”: reads data from CSV, dynamically resizes text to fit bounding box, then applies text style, and outputs image as pdf

xinyu-dev/Pymol-script-repo

Collected scripts for Pymol

xinyu-dev/signal_peptide_mutagensis

repository for signal peptide mutagenesis paper

xinyu-dev/antibody-csv-to-html

Javascript to convert antibody information from csv tables to html pages

xinyu-dev/bionemo-gitbook

xinyu-dev/cas-analytics-dashboard

An analytics dashboard built using Plotly Dash (Python) for data visualization of Chinese Antibody Society's multimedia platforms.

xinyu-dev/interactive-datatable

Simple implementation of a responsive, interactive data table using jquery, dataTables.js, and bootstrap. https://xinyu-dev.github.io/interactive-datatable/

xinyu-dev/MHCI-A0201-9mer

Benchmarking MHC-I epitope prediction algorithms ( IEDB ANN, MHCFlurry, and NetMHCpan-BA) in prediction of high affinity (IC50 < 500 nM) 9-mer binders to human MHC-I HLA-A02:01.

xinyu-dev/plotly.py

An open-source, interactive graphing library for Python (includes Plotly Express) :sparkles:

xinyu-dev/swot

Identify email addresses or domains names that belong to colleges or universities. Help automate the process of approving or rejecting academic discounts.

xinyu-dev/world.geo.json

Annotated geo-json geometry files for the world

xinyu-dev/xinyu-dev.github.io

main webpage - current under development