ballesterus / UPhOLinks
Scripts for homology and orthology assessment from genomic sequences.
☆19Updated 4 years ago
Alternatives and similar repositories for UPhO
Users that are interested in UPhO are comparing it to the libraries listed below
Sorting:
- A Python package for testing evolutionary hypotheses in genome-wide approaches.☆31Updated 4 years ago
- Perl script for manipulating multiple sequence alignments for phylogenetic reconstruction☆11Updated 10 years ago
- STAG: Species Tree from All Genes☆34Updated 6 years ago
- ☆32Updated 4 years ago
- A box of genomics tools☆21Updated 5 years ago
- MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree☆45Updated 5 years ago
- Convergent substitution detection tool based on the PCOC model☆31Updated 3 years ago
- scripts to parse and analyse MCScanX collinearity output☆32Updated 5 years ago
- A Plant Presence/absence Variants Scanner and Pan-genome Construction Pipeline☆27Updated 4 years ago
- ☆21Updated 5 years ago
- Python HyPhy: Facilitating HyPhy execution and parsing☆21Updated 3 years ago
- findGSE is a tool for estimating size of (heterozygous diploid or homozygous) genomes by fitting k-mer frequencies iteratively with a ske…☆38Updated last year
- These are scripts that I use frequently in genome annotation projects. Some of them have evolved awkwardly so the code is difficult to fo…☆16Updated 7 years ago
- Source code from Zhang et al., (2014) Genomic data of avian phylogenomics project. GigaScience 3:26☆35Updated last year
- ☆15Updated 5 years ago
- A tool to infer species tree and phylogenetic network from multilocus data☆32Updated 5 years ago
- ☆16Updated 10 months ago
- Generates an NCBI .tbl file of annotations on a genome.☆68Updated 7 years ago
- FASconCAT-G offers a wide range of possibilities to edit and concatenate multiple nucleotide, amino acid, and structure sequence alignmen…☆34Updated last year
- PREQUAL: a pre-alignment quality filter for comparative sequence analyses☆32Updated 3 years ago
- Easily construct the ML species tree with single-copy gene shared by different species.☆27Updated 6 years ago
- Conditional Reciprocal Best Blast☆41Updated 8 years ago
- Methods for finding associations between phenotypic and genomic differences between species using the Forward Genomics framework☆24Updated 2 years ago
- A high performance tool to identify orthologs and paralogs across genomes.☆26Updated 2 years ago
- Improved Phased Assembler☆28Updated 3 years ago
- A statistical framework for ploidy estimation using NGS short-read data☆60Updated 7 years ago
- Genome Annotation Pipeline☆36Updated last year
- A shiny application to visualize MCscan result☆37Updated 2 years ago
- Compute N50/NG50 and auN/auNG☆32Updated last year
- scripts and intermediate files used to annotate TEs in Jiao et al.☆35Updated 7 years ago