Ecosyste.ms: Awesome

https://github.com/bradfordcondon/diaglockpick

Quickly identify and generate primers for diagnostic loci

blast boinformatics genomics phylogenetics primers snps

Last synced: 08 Nov 2024

https://github.com/jaffar-hussein/phyloexplora

The project focuses on studying three extinct feline species from the American continent, analyzing ancient DNA sequences to uncover their evolutionary relationships with contemporary feline species. Implemented in C, the project involves parsing FASTA files, pairwise sequence alignment, and constructing phylogenetic trees using various algorithms.

algorithms binary-tree c genetics linked-list makefile phylogenetics

Last synced: 23 Nov 2024

https://github.com/dane-meister/genetic-distance-data-calculator

This repository contains a C program for calculating genetic distances between taxa. The program reads genetic distance data from an input csv file, parses and validates it, and initializes internal data structures to store the distance values.

c c-programming c-programming-language command-line-tool data-validation genetic-distances phylogenetics

Last synced: 19 Nov 2024

https://github.com/uscbiostats/rphyloxml

Read and write phyloXML files in R

phylogenetics phyloxml r rpackage xml

Last synced: 11 Nov 2024

https://github.com/uscbiostats/geese

GEne-functional Evolutionary model using SufficiEncy

biostatistics evolutionary-biology gene-evolution gene-functions phylogenetics rpackage rstats

Last synced: 11 Nov 2024

https://github.com/lisabensoussan/dna_lab

This project provides hands-on experience in DNA analysis using R, covering sequence manipulation, mutation analysis, GC content, fragment analysis, sequence alignment, RNA-seq, variant analysis, and phylogenetics.

dna-sequences fragment-length gc-content mutation-analysis phylogenetics rna-seq-analysis sequence-alignment

Last synced: 11 Nov 2024

https://github.com/yuanx749/phasty

A Python interface for PHAST (phylogenetic analysis with space/time models).

package phylogenetics tool

Last synced: 10 Nov 2024

https://github.com/novikd/vpr_mcmc

Viral Phylogeny Reconstruction with MCMC

bioinformatics phylogenetics

Last synced: 25 Nov 2024

https://github.com/alessandrofelder/pangolin

The collection of R scripts I used for scaling analysis and phylogenetically independent contrasts in my PhD project

biology phylogenetics r scaling

Last synced: 17 Dec 2024

https://github.com/4ment/torchtree-experiments

phylogenetics physher pytorch torchtree variational-bayes

Last synced: 07 Nov 2024

https://github.com/srom/archaea-vs-bacteria

Code from paper "Systematic genome-guided discovery of antagonistic interactions between archaea and bacteria"

antimicrobial archaea bacteria microbiology phylogenetics

Last synced: 30 Oct 2024

https://github.com/rvosa/bio-phylo-xs

Bio::PhyloXS - Core Bio::Phylo modules implemented in C

bioinformatics c computational-biology perl phylogenetics

Last synced: 05 Nov 2024

https://github.com/bradfordcondon/wgpan

Whole-Genome Pairwise Alignment Noising

phylogenetics r

Last synced: 08 Nov 2024

https://github.com/bredeson/assannphy

Assembly, Annotation, and Phylogenetics of bacterial genomes

annotation assembly phylogenetics pipelines

Last synced: 19 Dec 2024

https://github.com/rvosa/bio-phylo-forest-dbtree

Bio::Phylo::Forest::DBTree - Object API for trees in portable databases

bioinformatics computational-biology databases object-relational perl phylogenetics

Last synced: 05 Nov 2024

https://github.com/seidels/sciphy-materials

Here, we publish all scripts to reproduce the analyses in the manuscript Sciphy: A Bayesian phylogenetic framework using sequential genetic lineage tracing data

developmental-biology gastruloids lineage-tracing phylogenetics single-cell

Last synced: 17 Nov 2024

https://github.com/4ment/bwest

Modules for BEAST 2

beast2 phylogenetics

Last synced: 07 Nov 2024

https://github.com/sudorook/newick-tools

Process and visualize Newick-formatted phylogenetic trees.

newick phylogenetics

Last synced: 25 Nov 2024