paml

There are 0 repository under paml topic.

LKremer / MSA_trimmer
Straightforward & minimalistic removal of poorly aligned regions in sequence alignments.
sequence-alignment msa-trimmer aligned-regions multiple-sequence-alignment trimming trimmer alignment-trimming cds-alignment codon-alignment phylogenetics paml codeml molecular-evolution
Language:Python 16
sabifo4 / Tutorial_MCMCtree
MCMCtree tutorials
bayesian evolution paml timetree mcmctree
Language:R 12
Arkadiy-Garber / ParaHunter
Identification of gene paralogs in genomes, and calculation of dS and dN/dS values for paralogous gene pairs
codeml gene-paralogs paml duplicates paralogs
Language:Python 3
chenyangkang / Fasta2Codeml
A codeml (PAML package) wrapper to make life easier. Dummy input unaligned multi-species fasta file (a single gene), and output codeml result.
codeml paml ecology molecular-evolution natural-selection selection
Language:Python 2
cvn001 / PAML_branch_sites_pipeline
PAML pipeline
bioinformatics-pipeline paml evolution
Language:Python 1
PetropoulakisPanagiotis / clustering
Clustering methods implementations in C++: Lloyd, K-Means, K-Means++, PAM
k-means k-means-plus-plus lloyds lsh hypercube paml silhouette clustering cplusplus machine-learning clustering-algorithm cpp clustering-methods clustering-models cluster-analysis algorithms-and-data-structures clustering-analysis implementation implementation-of-algorithms lloyds-algorithm
Language:C++ 0
sophiagosselin / invader_sim
Simulates the evolution of intein invaded extein sequences based on simulated phylogenies and using a Monte-Carlo like process.
bioperl evolutionary-simulation evolver inteins monte-carlo paml perl r
Language:Perl 0
idolawoye / Treemaker
A python script that takes alignment file and builds a phylogeny tree.
biopython maximum-likelihood paml phylogeny
Language:Python
vsmicrogenomics / codon-alignment-suite
It is a powerful tool for aligning nucleotide sequences based on protein alignments, translating nucleotide sequences to protein, and generating phylogenetic trees using Biopython.
codon-alignment dnds-estimation kaks paml selective-pressures tree kaks-calculation
Language:Python

paml

LKremer / MSA_trimmer

sabifo4 / Tutorial_MCMCtree

Arkadiy-Garber / ParaHunter

chenyangkang / Fasta2Codeml

cvn001 / PAML_branch_sites_pipeline

PetropoulakisPanagiotis / clustering

sophiagosselin / invader_sim

idolawoye / Treemaker

vsmicrogenomics / codon-alignment-suite