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Search results for genome repeat

28 search results found

Genometools ⭐ 261

GenomeTools genome analysis system.

Winnowmap ⭐ 131

Long read / genome alignment software

Expansionhunter ⭐ 129

A tool for estimating repeat sizes

FunGAP: fungal Genome Annotation Pipeline

Mining CRISPRs in Environmental Datasets

Telomeric Identifier ⭐ 73

Identify and find telomeres, or telomeric repeats in a genome.

Tandem Genotypes ⭐ 43

Dnapipete ⭐ 38

dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify Transposable Elements in small samples of NGS datasets. It is very useful to quantify the proportion of TEs in newly sequenced genomes since it does not require genome assembly and works on small datasets (< 1X).

An ultrafast tool for genome-wide survey of microsatellites and primer design

PERF is an Exhaustive Repeat Finder

Transposome ⭐ 30

A toolkit for annotation of transposable element families from unassembled sequence reads

Segalign ⭐ 26

A Scalable GPU-Based Whole Genome Aligner, published in SC20: https://doi.ieeecomputersociety.org/10.1109/SC4140

Tandem repeat expansion detection or genotyping from long-read alignments

Parsing Repeatmasker Outputs ⭐ 21

Few scripts facilitating the extraction of info from Repeat Masker .out files

Nextflow Annotate ⭐ 18

Workflows I find helpful for fungal genome annotation

Danbing Tk ⭐ 18

Toolkit for VNTR genotyping and repeat-pan genome graph construction

Msiprofiler ⭐ 14

Repo that aids in the detection of microsatellite instabilities (MSI) from sequencing data

SEquence ALignment evaluation suite

Te Search Tools ⭐ 11

Python wrappers for programs that search for transposable elements

Relocate2 ⭐ 10

Dascrubber Wrapper ⭐ 9

Wrapper script for easier read scrubbing with DASCRUBBER

Detect contigs of complete circular genomes

Mrcanavar ⭐ 7

micro-read Copy Number Variant Regions finder

Long Read Assembler Test Cases ⭐ 7

A small set of test cases for long-read assembly tools

Dot2dot: Accurate Whole-Genome Tandem Repeats Discovery

Repeat Aware ⭐ 6

Repeat Aware Performance Evaluation of Scaffolding Tools

Genome Data Of Hanfu Apple ⭐ 6

FASTA files of chromosomes and genes, gff files for gene models.

Simple Circularise ⭐ 5

For a sequence or list of sequences, simple-circularise will circularise a linear sequence that should be circular but has been overlapped during assembly.

Mite Tracker ⭐ 5

MITE Tracker: An accurate approach to identify miniature inverted-repeat transposable elements in large genomes

RNA-seq pipeline to detect viral reads

Phasomeit ⭐ 5

Tool for locating, classfying, and grouping phase variable SSRs in genomic collections

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