Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics
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Updated
Jun 27, 2024 - Python
Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics
Earl Grey: A fully automated TE curation and annotation pipeline
A pipeline to detect chimeric transcripts derived from genes and transposable elements.
Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com/articles/10.1186/s13100-022-00264-4
Distribution of TEs and their relationship to genes in host genome
MCHelper: An automatic tool to curate transposable element libraries
Composite Transposon Finder
A pipeline for identification and annotation of transposable element (TE) insertions using next generation sequencing (NGS) data.
Uncertainty-aware quantification of Transposable Elements expression in scRNA-seq
A pipeline to to determine the repeat content of genes and their neighboring regions.
High-precision TE Annotator
A Snakemake workflow for single copy gene, transposable elements and tRNA expression analysis
Tn3 Transposon/Toxin Finder
Scripts I have written as a graduate research assistant
TE Classifier Using CNN
Build your own deep learning transposable elements classifier with ease.
Interrogating the influence of Transposable Element insertions on transcriptional dynamics
Find and classify transposable elements using convolutional neural networks.
Scripts I wrote as a graduate research assistant while working on the Wyeomyia smithii Genome project for Dr. Elizabeth Cooper's Lab at UNC Charlotte
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