niccw / repeatcraftpLinks
meta-pipeline for repetitive element de-fragmentation and annotation
☆28Updated 5 years ago
Alternatives and similar repositories for repeatcraftp
Users that are interested in repeatcraftp are comparing it to the libraries listed below
Sorting:
- dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…☆59Updated 2 years ago
- ☆45Updated 8 years ago
- Accompanying repository for our publications on manual curation methods for Transposable Elements.☆21Updated last year
- A shiny application to visualize MCscan result☆37Updated 3 years ago
- A program to call variants from genome alignment☆81Updated 6 months ago
- ☆67Updated 2 weeks ago
- TSEBRA: Transcript Selector for BRAKER☆48Updated this week
- Show pangenome graphs in an easy way☆56Updated 3 months ago
- Annotation helper tool for the manual curation of transposable element consensus sequences☆52Updated 8 months ago
- Read, manipulate and visualize 'Pairwise mApping Format' data in R☆75Updated 4 years ago
- Pipeline to convert a haploid assembly into diploid☆106Updated 9 months ago
- A program for assessing the T2T genome continuity☆89Updated last month
- Tools for improving the sensitivity and specificity of genome alignments☆58Updated last year
- Few scripts facilitating the extraction of info from Repeat Masker .out files☆84Updated 4 years ago
- ☆78Updated 5 years ago
- Simple pileup-based variant caller☆93Updated 6 months ago
- RepeatIdentifier☆70Updated 8 months ago
- A fast tool for detecting and decomposing segmental duplications in genome assemblies☆54Updated 3 months ago
- A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files☆34Updated 3 years ago
- TGS scaffolding☆47Updated 4 years ago
- Call select base modifications in PacBio HiFi reads☆15Updated last week
- A pipeline that accepts a VCF file to run through Admixture☆63Updated 10 months ago
- A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats☆69Updated 4 years ago
- Neural network classification of TE☆96Updated last month
- Portable solution to generate genome alignment chains using lastz☆59Updated last month
- An R package to visualize chromosome scale repeat patterns and predict centromere locations.☆41Updated 2 weeks ago
- A tool for evaluate long-read de novo assembly results☆48Updated last year
- Python wrappers for programs that search for transposable elements☆19Updated 9 years ago
- use long sequenced reads to close gaps in assemblies☆39Updated 7 years ago
- MUM&Co is a simple bash script that uses Whole Genome Alignment information provided by MUMmer (only v4) to detect Structural Variation☆75Updated 2 months ago