Database-Integrated Genome Screening (DIGS) tool. Explore the dark genome using BLAST and a relational database.
-
Updated
May 24, 2024 - Perl
Database-Integrated Genome Screening (DIGS) tool. Explore the dark genome using BLAST and a relational database.
Snakemake pipeline to analyze retrotransposable element 'omics data.
Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com/articles/10.1186/s13100-022-00264-4
Annotation helper tool for the manual curation of transposable element consensus sequences
A Snakemake workflow for single copy gene, transposable elements and tRNA expression analysis
MCHelper: An automatic tool to curate transposable element libraries
Earl Grey: A fully automated TE curation and annotation pipeline
High-precision TE Annotator
starfish: a modular toolkit for giant mobile element annotation
Evolutionary genomics of chromosomal inversions in Atlantic herring
Scripts I have written as a graduate research assistant
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
Extensive de-novo TE Annotator
Find and classify transposable elements using convolutional neural networks.
TE Classifier Using CNN
Build your own deep learning transposable elements classifier with ease.
A pipeline to detect chimeric transcripts derived from genes and transposable elements.
Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics
Snakemake workflow for transposable element RNA-Seq using TEtranscripts
A tool to quantify transposable elements expression in scRNA-seq
Add a description, image, and links to the transposable-elements topic page so that developers can more easily learn about it.
To associate your repository with the transposable-elements topic, visit your repo's landing page and select "manage topics."