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• Multiple CDS of a same gene
  Hi, I have googled a lot about this query but I could not find a suitable answer. I downloaded s...
• Calculating FPKM for large number of samples mapped to co-assembly
  Hi I am very new to this line of analyses so please be kind and I am sorry if I miss any inform...
• Annotation with Prokka or RAST.
  0 down vote favorite I was experimenting Prokka and RAST annotation tools. So, I took a well-anno...
• 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...
• Functional annotation of metagenomic contigs
  Dear Biostar users, Its a very naive question but i certainly lack some clarity here. I have con...
• 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...
• GenSAS merged annotation GFF3 file to NCBI .sqn file for NCBI genome submission
  Hi, I have annotated a genome using GenSAS, and I have a merged annotation file containing my pr...
• 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...
• 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...
• Gene Set Enrichment Analysis of RNA-seq data based on prokka annotated genomes
  Hi All I would like to conduct a gene set enrichment analysis of RNA-seq data. The experimental ...
• 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...
• Gene Count from GFF3 file
  We used the MAKER pipeline to predict genes from our recently assembled genome. After filtering...
• 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...
• Bacterial genome annotation
  What tools can I use for the annotation for bacterial genomes (complete and/or draft genomes)? I...
• 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....
• Protein Functional Annotations
  Dear all, I have predicted genes (both homology and ab-initio based methods were used) after the...
• 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 ...