code repo for mobileOG-db
Repository for the TRANSIT and TPP tools developed by the Ioerger Lab
This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.
transposon insertion site identified from raw fastq file and transposon sequences, using local alignment for identification.
Snakemake pipeline to analyze the integration patterns of the synthetic transposon Sleeping Beauty in relation to several genomic features.
Identification of transposon insertion sites
Methods for detection of horizontal transfer of transposable elements from genome sequences. GPL version 3 license.
A simple bash pipeline for extension and edge polishing of transposable elements consensi.
A few scripts I'm using for transposon analysis
Detect ALU insertions supported by specific split read pairs.
A tool for detecting TE insertions and evaluating the insertion rate (under development).
De novo repeat inference from long reads
TE Annotation code for W85 (diploid blueberry) genome.
Transcriptome sequencing assembly
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