Easily construct the ML species tree with single-copy gene shared by different species.
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Oct 26, 2018 - Python
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species-tree
Here are 8 public repositories matching this topic...
rapid phylogenomic tree calculator - A highly customizable framework for reproducible phylogenomic inference
bioinformatics
snakemake
pipeline
genomics
phylogenetics
maximum-likelihood
phylogenomics
phylogenomics-pipeline
species-tree
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Oct 15, 2024 - Python
Bash scripts for analysis of Hyb-Seq data (from raw reads to species trees)
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Oct 24, 2024 - Shell
wQFM implementation in Java
python
java
bioinformatics
perl
phylogenetics
bash-script
dendropy
species-tree
phylonet
gene-tree
weighted-quartets
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Mar 5, 2023 - Perl
Set of scripts to process HybSeq target enrichment HTS data (on computing grids).
data-science
bioinformatics
genomics
ngs
alignments
bioinformatics-pipeline
data-analysis
phylogenomics
molecular-biology
bioinformatics-analysis
bioinformatics-scripts
ngs-pipeline
hybseq-data
species-tree
metacentrum
paralogs
ngs-scripts
hybpiper
gene-tree
hybseq-scripts
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Sep 17, 2024 - Shell
Dynamic Programming (DP) based software Software to Estimate Species Tree by maximizing triplet agreement.
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May 27, 2020 - Python
This pipeline helps to build a phylogenetic tree using the BUSCO results over a group of species/genomes/proteomes/transcriptomes.
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Oct 27, 2023 - Python
This is a Snakemake workflow that calculates maximum-likelihood gene trees with IQ-TREE and 100 bootstrap replicates for each tree. Then, consensus trees are produced and combined to infer a species tree following the multispecies coalescent model with ASTRAL. Imported from my GitLab.
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Dec 21, 2023 - Python
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