GitHub topics: phylogenomics-pipeline
reslp/phylociraptor
rapid phylogenomic tree calculator - A highly customizable framework for reproducible phylogenomic inference
Language: Python - Size: 3.36 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 25 - Forks: 6
tomas-fer/HybPhyloMaker
Bash scripts for analysis of Hyb-Seq data (from raw reads to species trees/networks)
Language: Shell - Size: 204 MB - Last synced at: 6 days ago - Pushed at: 6 days ago - Stars: 19 - Forks: 9
jacksonhturner/orthogarden
ML phylogenetic inference for non-model organisms with short reads & assemblies
Language: Python - Size: 13.8 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 2 - Forks: 0
IBCHgenomic/bacterial-KO-phylogenomics
analyzing bacterial genome based ontologies and phylogenomics informativeness
Language: Python - Size: 2.46 MB - Last synced at: about 1 month ago - Pushed at: 8 months ago - Stars: 0 - Forks: 0
schultzm/havic
Detect Hepatitis A Virus Infection Clusters
Language: Python - Size: 9 MB - Last synced at: about 2 months ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 2
IBCHgenomic/arabidopsis-maf-cap-acccession
phylogenomics analysis for arabidopsis maf-cap genes
Language: HTML - Size: 7.05 MB - Last synced at: about 1 month ago - Pushed at: 8 months ago - Stars: 0 - Forks: 0
vinuesa/get_phylomarkers
A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using the multispecies coalescent and concatenation approaches
Language: Perl - Size: 118 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 46 - Forks: 8
Public-Health-Bioinformatics/irida-plugin-snippy-phylogenomics
Call core SNPs agains a reference genome for a set of bacterial isolates, and build a phylogenetic tree based on the core-genome SNP information.
Language: Java - Size: 754 KB - Last synced at: about 1 year ago - Pushed at: over 4 years ago - Stars: 2 - Forks: 1
niconm89/BUSCO2Tree
This pipeline helps to build a phylogenetic tree using the BUSCO results over a group of species/genomes/proteomes/transcriptomes.
Language: Python - Size: 46.5 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 1
V-Z/sondovac
Sondovač is a script to create orthologous low-copy nuclear probes from transcriptome and genome skim data for target enrichment. For latest version check "releases".
Language: TeX - Size: 14.4 MB - Last synced at: over 1 year ago - Pushed at: about 4 years ago - Stars: 5 - Forks: 2
gsgarlata/Eliurus-Phylogenomics
This repository includes scripts and data used in Sgarlata et al., 2023 entitled "The Genomic Diversity of the Eliurus genus in northern Madagascar with a Putative New Species".
Language: PostScript - Size: 93.4 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
AKU-CITRIC-Center-for-Bioinformatics/ncov
Genomic Epidemiology of SARS-CoV-2 in Pakistan
Size: 57.2 MB - Last synced at: 5 months ago - Pushed at: about 1 year ago - Stars: 3 - Forks: 0
pendy05/MISPhyl
Mutual Information Supermatrix Phylogenomics Pipeline (MISPhyl): Reconstructs Phylogenomics Tree based on Mutual Information Evaluated Phylogenetics Signals From Genomes Derived Orthologous Sets
Language: Python - Size: 64.9 MB - Last synced at: about 2 years ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0
guyleonard/orchard
:seedling: :clipboard: :arrow_right: :8ball: :arrow_right: :palm_tree: :evergreen_tree: :deciduous_tree: - A quick phylogenetic tree building pipeline!
Language: Perl - Size: 273 KB - Last synced at: about 2 years ago - Pushed at: almost 4 years ago - Stars: 1 - Forks: 0
