Comments (2)
Hello,
Unfortunately Agora is not able to process trees in NEXUS format, maybe treeio in R or ete3 in python are able to transform the format by tagging the characteristics of the nodes.
I'm interesting in a suitable solution if you figure out one.
best regards.
from agora.
Hi,
Did you fixed the problem to transform the formation of tree file? i'm thinking about to get the gene trees in nhx format, from the newick format which i already have. Should i write a customized script to transform? Or does there already exist some tools or pipelines which can help to do the transformation?
Thanks in advance.
With best regards,
Yu
from agora.
Related Issues (20)
- Are there any tools to build an evolutionary tree in NHX format (from Multiple sequence alignment) ? HOT 5
- divergence times with Agora
- Too many contiguous ancestral regions (CARs) HOT 2
- Lack of chromosomal information HOT 1
- input file issue HOT 2
- Plotting agora results plus a general question HOT 12
- Breakpoint regions mapping to reference chromosomes HOT 1
- ValueError when runnig misc.compareGenomes.py HOT 1
- Error when running agora-basic.py HOT 5
- Agora in living sps HOT 1
- Error Running agora-basic.py: "assert oldName not in seen" HOT 5
- Request for Custom Scripts: Rearrangement Breakpoints filtering and Interchromosomal Rearrangement Identification
- Clarification on Identifying Successive Genomes and Synthetic Blocks between Ancestral Nodes and Extant Genomes in PhylDiag HOT 2
- Creating input for analysis HOT 4
- How to locate the support scores of the AGORA adjacency graph for adjacent genes in ancGenome?
- Orthology groups correspond to HOGs? HOT 2
- Agora-generic pipeline seems to be βstuckβ for several days after adding 1 more genome HOT 4
- AssertionError in ALL.reformatGeneFamilies.py HOT 4
- drawKaryotype trouble HOT 2
- Purpose of ENSEMBL.buildProteinTrees HOT 5
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
π Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. πππ
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google β€οΈ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from agora.