using Trinotate or not?
Hi everyone is Trinotate helpful for assembly and functional annotation in non-model plants? is still supported?
rna-seq
• 1,483 views
•
link
written
by
rnaseq2018 •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
GO categorization
written by m.habib •Hi all, I am working on a non-model organism. I finished annotation of the transcriptome using trinotate and now I want to do gene set …
-
Gene symbol from trinotate annotation report
written by Sowmya Pulapet •Hello everyone, I had used both Trinity and Trinotate for assembly and functional annotation for De novo RNAseq. I have got the annotation report as …
-
KGML to new genomes
written by l.willianpacheco •Hi everyone I am working with non model plants and I am looking for tools to build KGML, and use it in R packages to …
-
Metatranscriptome annotation database
written by NatS •Hi there, I am looking to analyze the metatranscriptome of bacteria found on plants. I have sequenced my samples using nanopore and I've performed an …
-
GO annotation on diamond blasted transcriptome (nr db)
written by jfo •Hello! So far, Approaches to GO annotation of transcriptomes of non-model organisms (besides B2G) point to the use of Trinotate and Genescf. I would like …
-
DE for a de novo species
written by rnaseq2018 •Hi there, I'm trying to find out which genes have been deferentially expressed in an infected plant in a time course by RNAseq data analysis …
-
How to create meaningful statistics and chart using annotation file of eggnog mapper and trinotate.
written by sbchua.1990 •Hi, I have finish run annotation using eggnogmapper. Outputs are .annotations, .hmm_hits and .seed_orthologs files. How can I create meaningful charts showing percentages of each …
-
Tools for categorize COG/KOG list
written by pbigbigHi everyone, I have a quite basic question concerning Cluster of Orthologs (COGs). I just have obtained Trinotate annotation for my transcriptome with COGs assignments, …
-
Is there any tool to do GO, EC, and KEGG annotation for transcriptome assembly?
written by seta<p>Hi all,</p> <p>I'm looking for a tool to do functional analysis (GO, EC, and KEGG annotation) of de novo assembled transcriptome generated from a non-model …
-
Refseq proteins for several taxids
written by setaHi all, My question may sound simple. I'm trying to download the **plant ref-seq proteins** from NCBI to make blast database and run blastx for …
Of course Trinotate is helpful, annotating a transcriptome is a complex task and Trinotate is a pipeline that greatly eases the task. If it is the best solution, I don't know, but it is pretty good, especially if you used Trinity to assemble the transcriptome.
What do you mean?