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• Annotation with Prokka or RAST.
  0 down vote favorite I was experimenting Prokka and RAST annotation tools. So, I took a well-anno...
• Functional annotation of metagenomic contigs
  Dear Biostar users, Its a very naive question but i certainly lack some clarity here. I have con...
• Programs for bacterial gene prediction/annotation for nanopore assembly?
  I've assembled a known E. coli genome only using nanopore reads. I want to check if the genes pre...
• Ways to merge GO terms from different analyses?
  Hello! I would like to do gene ontology annotation of a set of proteins from a non-model organis...
• Prokka Annotation for Bacterial Transcriptomes
  Can Prokka be used to annotate bacterial transcriptomes? Say I have a fasta file generated from ...
• Should genus and species be specified when annotating de novo assemblies using Prokka
  Hi everyone, Could you please advise me whether genus and species should be specified when annota...
• Manually curate gene annotation by visualizing on IGV or tablet or any better visualization tool
  Dear Friends, I have the following data below and I want to manually curate the data using a vie...
• Get protein domain information from nucleotide sequence of assembled contigs?
  Dear Friends, I have a set of predicted ORFs/CDS. I want to see if there are protein domains ava...
• Bacterial genome annotation
  What tools can I use for the annotation for bacterial genomes (complete and/or draft genomes)? I...
• How to obtain more GO terms for transcripts
  Hi there, I am working on the annotation of genes assembled from RNA-Seq data from a non-model s...
• How to integrate augustus and InterProScan annotation?
  Hi all, I have a set of SNPs for an organism for which annotation is still in progress. I obtain...
• Gene Count from GFF3 file
  We used the MAKER pipeline to predict genes from our recently assembled genome. After filtering...
• Domain Prediction Tools for Windows
  Hello everyone! I would like to use InterProScan but I’m working on a Windows so I can’t use it....
• What is the best way to validate coding sequences (CDS) data from public databases ?
  Hii , Iam currently working on   mammalian  CDS  data downloaded from Ensembl83. Since I wanted ...
• Protein Functional Annotations
  Dear all, I have predicted genes (both homology and ab-initio based methods were used) after the...
• How to find pseudogenes in bacteria
  We have assembled and closed genomic DNA of a bacterium. We then annotated using Prokka and run I...
• Ion torrent Bam to Annotation
  I sequenced a bacterial genome using Ion Torrent machine and I assembled the reads against a refe...