Ensembl Compara Trees

A Ensembl Compara Trees is mentioned in a literature,which siad "Similarity Mapping of Contigs to Ensembl Compara Trees",but i really can not know how to use it .Is there anybody has some experience with running Ensembl compare trees on linux?

alignment blast rna-seq

• 1,244 views • link

written 9.7 years ago by chenjuanihb80119 •

0 answers

No answers yet.

More posts like this

Outgroup for phylogeny
written 3.4 years ago by Jaykumar •

Can anybody guide me on how to decide on which genome to use as outgroup for plotting rooted phylogeny? Does the outgroup has to be …
Extract species tree from the Ensembl Compara database
written 7.5 years ago by BlastedBadger

Hi, I have a problem specific to the EnsEMBL Compara database, which is how to retrieve the species tree that was used to run TreeBest …
Converting between Ensembl Versions
written 9.0 years ago by jwhidd •

Hi All, I have a list of Ensembl gene IDs from version 87. I would like to convert these IDs to the current Ensembl gene …
Does anyone have a cheatsheet to compare Usearch and Bowtie2 performance in different situation?
written 9.0 years ago by m.koohi.m

I am wondering if anyone has a cheat sheet or paper that compare Usearch and Bowtie2 performance? I really like to know which one is …
Ensembl Compara Trees
written 9.7 years ago by chenjuanihb80119 •

Recently,i want to use the data of Ensembl Compara gene trees.In one paper,which mentioned“BLASTX results were then used to associate C. hamatus contigs to Ensembl …
How to move a developed Galaxy software instance from Ubuntu Linux computer to the other one?
written 9.7 years ago by dublukkvas1954 •

How to move a developed Galaxy instance from Ubuntu Linux computer to the other one? Need to export it, in other words. Does anybody has …
Network comparison by using network topological features.
written 10.9 years ago by Bioinformatist Newbie

I want to find **disease drug relationship** by using **network based approaches**. Up til now I was using individual network properties like Strongly connected components …
Reduce redundancy of Trinity assembly using MIRA software
written 11.1 years ago by seta

Hi all, As you know Trinity generates too much contigs during de novo transcriptome assembly, as far as I found some people use cd-hit-est tool …
News: Upcoming Workshop: Ensembl Perl APIs
written 11.8 years ago by Denise CS

**What**: Ensembl Perl APIs: Exploring Ensembl programmatically **When**: 02-05 December 2014 **Where**: Bioinformatics Training Room, [Craik-Marshall Building](https://www.google.co.uk/maps?hl=en-GB&q=Craik-Marshall+Building,+Downing+Site,+Cambridge&source=calendar), Cambridge University At the end of this workshop, …
Bayesian Phylogeny For Very Divergent Dataset?
written 12.4 years ago by Arjen Ten Have

<p>A reviewer asked me to complement a maximum likelihood phylogeny with a Bayesian tree. Intuitively I think Bayes has problems with large divergent datasets (similarity …