hahnlab / CAFE
Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.
☆116Updated 4 years ago
Alternatives and similar repositories for CAFE:
Users that are interested in CAFE are comparing it to the libraries listed below
- Version 5 of the CAFE phylogenetics software☆131Updated 2 months ago
- Generate an interactive dot plot from mummer or minimap alignments☆200Updated last year
- Any Way to Show Multi genomic Synteny☆178Updated last week
- A library for running k-mers based GWAS☆107Updated 5 months ago
- Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data☆111Updated last year
- ☆204Updated 2 months ago
- Find, circularise and annotate mitogenome from PacBio assemblies☆179Updated last month
- A genome completeness evaluation tool based on miniprot☆204Updated last month
- MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes☆122Updated 5 months ago
- Fast and accurately polish the genome generated by long reads.☆221Updated 3 months ago
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆114Updated last month
- LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…☆199Updated 3 weeks ago
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆176Updated 5 months ago
- Nanopore data assembler☆149Updated 3 years ago
- A pipeline used to identify different modes of duplicated gene pairs☆98Updated last month
- RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag☆173Updated 3 years ago
- PASA software☆186Updated 2 months ago
- TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes☆94Updated 2 months ago
- Earl Grey: A fully automated TE curation and annotation pipeline☆165Updated this week
- ☆78Updated 9 months ago
- LongQC is a tool for the data quality control of the PacBio and ONT long reads.☆160Updated last year
- Tool to plot synteny and structural rearrangements between genomes☆302Updated last week
- Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation☆129Updated 2 weeks ago
- Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species☆169Updated 3 months ago
- Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets☆199Updated 7 months ago
- PacBio Assembly Tool Suite: Reads in ⇨ Assembly out☆116Updated 4 years ago
- FunGAP: fungal Genome Annotation Pipeline☆111Updated last year
- Meta-pipeline to identify transposable element insertions using next generation sequencing data☆97Updated last year
- Constructing a pangenome gene graph☆186Updated 2 weeks ago
- SMC++ infers population history from whole-genome sequence data.☆163Updated last year