Huilin's Notebook
Bioinformarics
1.
Binder design
1.1.
preprocessing
1.2.
design
1.3.
pae_interaction score
1.4.
backbones filtering
1.5.
results
2.
Computational Protein
2.1.
Environment Setup
2.2.
databases: PDB, Swiss-Prot, OMG_Prot50
2.3.
BLAST usage: BLASTp makeblastdb
2.4.
protein strcuture measurement
2.5.
fasta to mutated fasta .py
2.6.
sequence similarity .py
2.7.
foldseek usage
2.8.
MMseqs2 usage
2.9.
localcolabfold usage
2.10.
Encoding Sequences into Integer Representations Using K-mer Binary Mapping
2.11.
parasail in C usage
2.12.
Biopython
2.13.
unipressed.UniprotkbClient
2.14.
daliLite V5 usage
3.
PyMol
Statistics
4.
Bayesian inference
Random
5.
Shell Bash Slurm Command
6.
LaTex
7.
Python
8.
Visualization
8.1.
Drawing a plane perpendicular to a given line
8.2.
Plotly color
9.
Hugo: Book theme
10.
Hugo
11.
resources
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Huilin's Book
Binder Design