cgroza / GraffiTELinks
GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered polymorphisms in read sets using genome-graphs.
☆214Updated this week
Alternatives and similar repositories for GraffiTE
Users that are interested in GraffiTE are comparing it to the libraries listed below
Sorting:
- Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)☆164Updated 2 years ago
- pbsv - PacBio structural variant (SV) calling and analysis tools☆159Updated 9 months ago
- Evaluation and polishing workflows for T2T genome assemblies☆141Updated 5 months ago
- Jasmine: SV Merging Across Samples☆232Updated 11 months ago
- A genome completeness evaluation tool based on miniprot☆230Updated 2 months ago
- A tool for somatic structural variant calling using long reads☆157Updated last month
- Tools for plotting methylation data in various ways☆165Updated 2 weeks ago
- An ultra-fast and efficient genomic tool for coverage calculation☆162Updated 8 months ago
- Constructing a pangenome gene graph☆200Updated 4 months ago
- Tandem repeat expansion detection or genotyping from long-read alignments☆134Updated 2 weeks ago
- LongQC is a tool for the data quality control of the PacBio and ONT long reads.☆177Updated 2 years ago
- accurate LiftOver tool for new genome assemblies☆139Updated last year
- ☆220Updated last week
- ☆108Updated 2 weeks ago
- Comparison of multiple long read datasets☆149Updated last week
- Fast and accurately polish the genome generated by long reads.☆238Updated 11 months ago
- haplotypic duplication identification tool☆270Updated last month
- Dfam Transposable Element Tools Docker container.☆101Updated last month
- A genomic k-mer counter (and sequence utility) with nice features.☆148Updated 5 months ago
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆177Updated last year
- A *fast* tool for BAM/CRAM quality evaluation, intended for long reads☆163Updated this week
- Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation☆169Updated 4 months ago
- Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.☆163Updated 7 months ago
- Sensitive alignment of genomes with high sequence diversity, extensive structural polymorphism and whole-genome duplication variation☆182Updated last month
- Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data☆143Updated 4 months ago
- Earl Grey: A fully automated TE curation and annotation pipeline☆188Updated last week
- Pangenome-based genome inference☆149Updated last week
- Tandem Repeats Finder: a program to analyze DNA sequences☆195Updated 2 years ago
- Find, circularise and annotate mitogenome from PacBio assemblies☆190Updated 7 months ago
- Create statistic summary of an Oxford Nanopore read dataset☆125Updated 3 years ago