oushujun / LTR_retriever
LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also included in this package.
☆196Updated this week
Alternatives and similar repositories for LTR_retriever:
Users that are interested in LTR_retriever are comparing it to the libraries listed below
- Fast and accurately polish the genome generated by long reads.☆217Updated last month
- Any Way to Show Multi genomic Synteny☆173Updated 4 months ago
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆174Updated 4 months ago
- RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag☆172Updated 3 years ago
- Generate an interactive dot plot from mummer or minimap alignments☆195Updated last year
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆202Updated 2 years ago
- De-Novo Repeat Discovery Tool☆200Updated last month
- haplotypic duplication identification tool☆221Updated last year
- Filtering and trimming of long read sequencing data☆198Updated 2 years ago
- LongQC is a tool for the data quality control of the PacBio and ONT long reads.☆157Updated last year
- A genome completeness evaluation tool based on miniprot☆190Updated 4 months ago
- Version 5 of the CAFE phylogenetics software☆125Updated last week
- Nanopore data assembler☆143Updated 2 years ago
- WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes☆134Updated last month
- A gap-closing software tool that uses long reads to enhance genome assembly.☆192Updated 5 months ago
- Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference gen…☆140Updated 3 months ago
- NOVOPlasty - The organelle assembler and heteroplasmy caller☆182Updated last year
- Find, circularise and annotate mitogenome from PacBio assemblies☆174Updated last month
- A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification☆118Updated 2 weeks ago
- Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.☆117Updated 3 years ago
- RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.☆242Updated 3 months ago
- Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)☆141Updated last year
- PASA software☆183Updated last week
- Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data☆111Updated last year
- ☆171Updated last week
- A pipeline used to identify different modes of duplicated gene pairs☆95Updated 4 years ago
- Constructing a pangenome gene graph☆181Updated 7 months ago
- Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.☆138Updated last year
- Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads☆203Updated 3 months ago
- TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes☆90Updated last week