ballesterus / UPhOLinks
Scripts for homology and orthology assessment from genomic sequences.
☆19Updated 5 years ago
Alternatives and similar repositories for UPhO
Users that are interested in UPhO are comparing it to the libraries listed below
Sorting:
- scripts and intermediate files used to annotate TEs in Jiao et al.☆35Updated 7 years ago
- Perl script for manipulating multiple sequence alignments for phylogenetic reconstruction☆11Updated 11 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
- ☆16Updated last year
- scripts to parse and analyse MCScanX collinearity output☆32Updated 5 years ago
- ☆14Updated 6 years ago
- ☆33Updated 4 years ago
- Convergent substitution detection tool based on the PCOC model☆31Updated 3 years ago
- Source code from Zhang et al., (2014) Genomic data of avian phylogenomics project. GigaScience 3:26☆35Updated last year
- STAG: Species Tree from All Genes☆34Updated 6 years ago
- A Python package for testing evolutionary hypotheses in genome-wide approaches.☆31Updated 4 years ago
- ☆21Updated 6 years ago
- PREQUAL: a pre-alignment quality filter for comparative sequence analyses☆32Updated 3 years ago
- Genome Annotation Pipeline☆36Updated last year
- Python HyPhy: Facilitating HyPhy execution and parsing☆21Updated 3 years ago
- Conditional Reciprocal Best Blast☆42Updated 8 years ago
- ☆15Updated 5 years ago
- Easily construct the ML species tree with single-copy gene shared by different species.☆27Updated 6 years ago
- Phylogenetic Analysis of Long Terminal Repeat Retrotransposons☆18Updated 3 years ago
- ☆26Updated 7 months ago
- Visualising discordant reads☆15Updated 10 years ago
- Converting and demultiplexing of PacBio BAM files into gzipped fasta and fastq files.☆38Updated 2 years ago
- Likelihood-based Selective Sweep Detection☆40Updated 2 years ago
- calling SVs from Blasr contig level alignments☆54Updated 7 years ago
- CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies☆24Updated 5 years ago
- A statistical framework for ploidy estimation using NGS short-read data☆61Updated 7 years ago
- 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
- MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree☆45Updated 5 years ago
- Red: an intelligent, rapid, accurate tool for detecting repeats de-novo on the genomic scale.☆18Updated last year
- Infer demographic history with the Moran model☆48Updated 3 months ago