Pinned Repositories
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
bvp_manuscript
Code for BVP manuscript
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's Repositories
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/alphafold_installation
The following is a step-by-step guide to install the alphafold 2 on an AWS EC2 Ubuntu instance
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/bvp_manuscript
Code for BVP manuscript
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/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/2025-01-biologic-summit-workshop
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/generative-virtual-screening
NIM Agent Blueprint for generative AI-based virtual screening
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