mobile-genetic-elements

There are 15 repositories under mobile-genetic-elements topic.

  • fmalmeida/bacannot

    Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.

    Language:Nextflow984709

  • Kalan-Lab/zol

    zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)

    Language:Python45254
  • mobileOG-db

    clb21565/mobileOG-db

    code repo for mobileOG-db

    Language:Python312155

  • wanyuac/GeneMates

    An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences

    Language:R24212

  • beiko-lab/arete

    AMR/VF LGT focused bacterial genomics analysis workflow

    Language:Python212754

  • milnus/Magphi

    Tool intended to pull out sequences and annotations between insertion sites specified by the user.

    Language:Python121133

  • Kalan-Lab/codoff

    codoff: a program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, phage, etc.) relative to the full genome.

    Language:Python9201

  • YoukaiFromAccounting/skandiver

    skandiver is a program for identifying mobile genetic elements (prophages, plasmids, transposases, etc.) from assembled whole genome sequences using average nucleotide identity (ANI)

    Language:Python8100

  • jordiabante/biodive

    A reference-free statistical approach to diversity-generating & mobile genetic element discovery

    Language:Python5120

  • danillo-alvarenga/tncomp_finder

    Composite Transposon Finder

    Language:Python4121

  • danillo-alvarenga/tn3-ta_finder

    Tn3 Transposon/Toxin Finder

    Language:Python2121

  • jlmaier12/ProActive

    Detect elevations and gaps in read coverage on metagenome contigs or assembled genomes

    1100

  • nali321/metabundance

    Metabundance: Investigating ARG abundance in metagenomes and linking them to MGEs

    Language:Python0100

  • RawalTeam/MeX-Pipeline

    A pipeline for identification and annotation of transposable element (TE) insertions using next generation sequencing (NGS) data.

    Language:Python0102

  • vhfsantos/MGEcatcher

    Automated detection of unfixed mobile genetic elements in long read DNA sequencing data

    Language:Shell0310