Parkerdow

Bioengineering PhD Student in the Morris Lab at UCSD.

University of California, San Diego

Pinned Repositories

TRUST4
TCR and BCR assembly from RNA-seq data
Language:C10
bio_embeddings
Get protein embeddings from protein sequences
Language:HTML00
DeepTCR
Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data
Language:Jupyter Notebook00
Single_Cell_Seq_Analysis
Current Testing Pipeline For Running CellRanger and MIXCR Single Cell TCRSeq (WIP)
00
tcr-bert
Large language modeling applied to T-cell receptor (TCR) sequences.
Language:Jupyter Notebook00
TCRconv
TCRconv is a deep learning model for predicting recognition between T cell receptors and epitopes. It uses protBERT embeddings for the TCRs and convolutional neural networks for the prediction.
Language:Jupyter Notebook00
tcr-bert
Large language modeling applied to T-cell receptor (TCR) sequences.
Language:Jupyter Notebook447
snakemake-executor-plugin-slurm
A Snakemake executor plugin for submitting jobs to a SLURM cluster
Language:Python913

Parkerdow/Single_Cell_Seq_Analysis
Current Testing Pipeline For Running CellRanger and MIXCR Single Cell TCRSeq (WIP)
Parkerdow/tcr-bert
Large language modeling applied to T-cell receptor (TCR) sequences.
Parkerdow/TRUST4
TCR and BCR assembly from RNA-seq data
Language:C1
Parkerdow/bio_embeddings
Get protein embeddings from protein sequences
Parkerdow/TCRconv
TCRconv is a deep learning model for predicting recognition between T cell receptors and epitopes. It uses protBERT embeddings for the TCRs and convolutional neural networks for the prediction.
Parkerdow/DeepTCR
Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data