GitHub topics: orthology-inference
BIONF/fDOG
Feature-aware Directed OrtholoG search
Language: Python - Size: 28.5 MB - Last synced at: 1 day ago - Pushed at: 1 day ago - Stars: 10 - Forks: 4
PhyloSofS-Team/thoraxe
Use Thor's Axe to cut exons into their evolutionary building blocks :zap:
Language: Python - Size: 9.3 MB - Last synced at: 19 days ago - Pushed at: 19 days ago - Stars: 12 - Forks: 3
reslp/phylociraptor
rapid phylogenomic tree calculator - A highly customizable framework for reproducible phylogenomic inference
Language: Python - Size: 3.36 MB - Last synced at: 21 days ago - Pushed at: 21 days ago - Stars: 25 - Forks: 6
BIONF/dcc2 Fork of trvinh/dcc2
Dynamic core orthologs compilation tool
Language: Python - Size: 96.7 KB - Last synced at: 20 days ago - Pushed at: about 2 months ago - Stars: 1 - Forks: 0
drostlab/orthologr
Genome wide orthology inference and dNdS estimation
Language: R - Size: 103 MB - Last synced at: 7 days ago - Pushed at: over 1 year ago - Stars: 90 - Forks: 27
JLSteenwyk/orthosnap
a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees
Language: Python - Size: 112 MB - Last synced at: 18 days ago - Pushed at: 3 months ago - Stars: 25 - Forks: 1
datasnakes/OrthoEvolution
An easy to use and comprehensive python package which aids in the analysis and visualization of orthologous genes. 🐵
Language: Python - Size: 40.7 MB - Last synced at: 22 days ago - Pushed at: 5 months ago - Stars: 28 - Forks: 4
univieCUBE/deepnog
Protein orthologous group assignment with deep learning
Language: Python - Size: 4.51 MB - Last synced at: 13 days ago - Pushed at: 4 months ago - Stars: 26 - Forks: 8
JLSteenwyk/orthofisher
a broadly applicable tool for automated gene identification and retrieval
Language: Python - Size: 81.9 MB - Last synced at: 15 days ago - Pushed at: 5 months ago - Stars: 30 - Forks: 1
DRL/kinfin
Taxon-aware analysis of clustered protein sequences
Language: Python - Size: 163 MB - Last synced at: 5 months ago - Pushed at: 10 months ago - Stars: 30 - Forks: 12
alex137911/pineoblastoma
Sample code for cross-species analysis of MYC-driven transgenic zebrafish cancer model
Language: R - Size: 92.8 KB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0
BIONF/HaMStR
Feature-aware orthology prediction tool. Provided data package: Quest for Orthologs reference gene sets 2019.
Language: Perl - Size: 27.9 MB - Last synced at: 3 days ago - Pushed at: over 4 years ago - Stars: 9 - Forks: 2
glarue/reciprologs
Find reciprocal best hits (DIAMOND or BLAST) between two (or more!) sets of sequences.
Language: Python - Size: 90.8 KB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 11 - Forks: 4
UdeS-CoBIUS/TranscriptOrthology
Algorithm to infer clusters of isoorthologous transcripts using gene-level homology relationships and a Reciprocal Best Hits approach
Language: Python - Size: 16.4 MB - Last synced at: 22 days ago - Pushed at: about 1 year ago - Stars: 1 - Forks: 0
fethalen/phylopypruner
Tree-based orthology inference with functionality for reducing contamination
Language: Python - Size: 13.6 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 1
Rinoahu/SwiftOrtho
A high performance tool to identify orthologs and paralogs across genomes.
Language: Python - Size: 20.1 MB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 22 - Forks: 12
wrf/supermatrix
scripts to process, join, split, or add new proteins to a supermatrix alignment using hmms
Language: Python - Size: 41.4 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 8 - Forks: 3
SamiLhll/rbhXpress
A shell script that uses diamond to compute the reciprocal best hits between two proteomes in a rush.
Language: Shell - Size: 12.3 MB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0
fethalen/orthoquoll
A stand-alone tool for evaluating simple statistics of orthologs
Language: Python - Size: 340 KB - Last synced at: about 2 years ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0
CyanoWorld/reciprocal_blast_pipeline
Reciprocal BLAST analysis pipeline with Snakemake and Django
Language: HTML - Size: 57.9 MB - Last synced at: over 1 year ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 0
alepfu/vog-eda
EDA of virus orthologous groups (VOGs) from VOGDB and eggNOG
Language: Jupyter Notebook - Size: 501 KB - Last synced at: 4 months ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 0
arendsee/synder
Trace intervals between genomes using a synteny map
Language: C++ - Size: 4.52 MB - Last synced at: 11 months ago - Pushed at: about 6 years ago - Stars: 7 - Forks: 3
datasnakes/orthoevol-snakemake
A snakemake workflow for the OrthoEvol python package.
Language: Python - Size: 11.7 KB - Last synced at: 2 months ago - Pushed at: almost 6 years ago - Stars: 1 - Forks: 0