A pipeline to to determine the repeat content of genes and their neighboring regions.
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Jun 2, 2017 - Python
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transposable-elements
Here are 71 public repositories matching this topic...
transposon and LD analysis for replicated experimental evolution fruit fly populations
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Jul 20, 2017 - R
Nextflow workflow for automatic repeat detection, classification and masking
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Feb 19, 2018 - Perl
characterization of TEs from low-coverage genomic sequence data
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Jun 4, 2018 - Shell
code to analyse RepeatMasker output
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Jun 9, 2018 - HTML
SLURM-ready bash scripts to run the complete REPET pipeline
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Jun 14, 2019 - Shell
Tn3 Transposon/Toxin Finder
bioinformatics genomics microbiology transposable-elements mobile-genetic-elements type-ii-toxins tn3-transposases
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Apr 29, 2020 - Python
Determine the sequence type of specific transposable elements in bacterial isolates.
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Oct 13, 2020 - Java
TE annotation pipeline and analysis scripts for the insect mobilome publication by Petersen et al.
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Apr 1, 2021 - Perl
Composite Transposon Finder
bioinformatics genomics microbiology transposable-elements mobile-genetic-elements composite-transposons
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Jun 23, 2021 - Python
Genotyping of segregating mobile elements insertions
bioinformatics vcf alu transposons transposable-elements genotype-likelihoods genotyping short-reads
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Jul 29, 2021 - Perl
A pipeline for identification and annotation of transposable element (TE) insertions using next generation sequencing (NGS) data.
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Aug 5, 2021 - Python
Simultaneous analysis of genes and transposable elements (TEs) from 10X scRNAseq datasets derived from CD and NIBD samples using Alevin.
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Aug 16, 2021 - R
RepeatMasker Trinity based Parse Script
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Sep 8, 2021 - R
Singularity image for PASTEC (transposable elements classification tool).
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Apr 12, 2022 - Singularity
A simple bash pipeline for extension and edge polishing of transposable elements consensi.
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May 18, 2022 - Shell
Supplementary to publication "DNA Transposon Expansion is Associated with Genome Size Increase in Mudminnows"
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Jan 9, 2023
SalmonTE is an ultra-Fast and Scalable Quantification Pipeline of Transpose Element (TE) Abundances
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Jan 26, 2023 - Jupyter Notebook
A package to count reads mapping on transposable elements subfamilies, families and classes.
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Feb 3, 2023 - Python
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