ranwez / MACSE_V2_PIPELINESLinks
This repository provides source code for several pipelines dedicated to the alignment of nucleotide coding sequences that are based on MACSE. These pipelines are mostly bash scripts encapsulated within singularity containers and sometimes combined in nextflow workflows.
☆35Updated 2 years ago
Alternatives and similar repositories for MACSE_V2_PIPELINES
Users that are interested in MACSE_V2_PIPELINES are comparing it to the libraries listed below
Sorting:
- A massively parallel tool for model selection and tree inference on thousands of genes☆50Updated last year
- Alignment-based retrieval and concatenation of phylogenetic markers from whole genome sequence (WGS) data☆36Updated last year
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆62Updated 2 years ago
- A tool to infer species tree and phylogenetic network from multilocus data☆32Updated 5 years ago
- a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies☆78Updated last month
- MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree☆45Updated 6 years ago
- Alignment-Based Sequence extraction☆15Updated 3 years ago
- Automated de novo assembly of whole chloroplast genomes.☆47Updated last year
- Multi-genome synteny block visualization tool☆47Updated last month
- biodiversity genomics course by Nicol Rueda, Karin Näsvall and Joana Meier from the Wellcome Sanger Institute☆58Updated 2 weeks ago
- FASconCAT-G offers a wide range of possibilities to edit and concatenate multiple nucleotide, amino acid, and structure sequence alignmen…☆34Updated last year
- A statistical framework for ploidy estimation using NGS short-read data☆62Updated 7 years ago
- STAG: Species Tree from All Genes☆34Updated 6 years ago
- Generates an NCBI .tbl file of annotations on a genome.☆68Updated 7 years ago
- ☆42Updated 2 years ago
- Synteny Imager☆65Updated 3 weeks ago
- HyPhy standalone analyses☆48Updated 3 months ago
- Tutorials on phylogenomic analyses for the ForBio Phylogenomics course☆37Updated last year
- PREQUAL: a pre-alignment quality filter for comparative sequence analyses☆32Updated 3 years ago
- R package for comparison of synteny conservation at the genome-wide scale.☆14Updated last year
- Wrapper for the genoPlotR R package. This wrapper makes phylogeny, genbank files and blast comparisons that is needed for the genoPLotR p…☆14Updated 4 years ago
- Automatic evaluation of HGTs☆30Updated 9 months ago
- ☆33Updated 4 years ago
- Read, manipulate and visualize 'Pairwise mApping Format' data in R☆75Updated 4 years ago
- EnTAP is moving to GitLab for future changes https://gitlab.com/PlantGenomicsLab/EnTAP☆41Updated 10 months ago
- ContScout sequence contamination filter tool☆26Updated 6 months ago
- Gene tree - species tree reconciliation from gene tree distributions☆35Updated 3 weeks ago
- ☆26Updated 9 months ago
- Methods for finding associations between phenotypic and genomic differences between species using the Forward Genomics framework☆24Updated 2 years ago
- wgd v2: a suite of tools to uncover and date ancient polyploidy and whole-genome duplication☆37Updated 9 months ago