text: user7444: I am checking the quality control of my sequences using the Fastqc tool. For some steps, like "Per base GC content", etc., I received a warning. So, I was wondering whether I Should also take care of warning messages in the Fastqc tool or I should only care about errors! 
  I would appreciate it if someone could help me with this, please.
  
  user4282: Generally yes, but it depends the type of study. Remember that Fastqc was developed for bacterial genomes, mainly, so an unusually shaped distribution in that particular dataset could indicate a contaminated library. But, for example, in an amplicon 16S amplicon dataset it's expected that other modules fail (Duplicate Sequences, Overrepresented Sequences, etc.) not only GC.
  
original_text: 7444: <p>I am checking the quality control of my sequences using the Fastqc tool. For some steps, like "Per base GC content", etc., I received a warning. So, I was wondering whether I Should also take care of warning messages in the Fastqc tool or I should only care about errors! 
  I would appreciate it if someone could help me with this, please.</p>
   4282: <p>Generally yes, but it depends the type of study. Remember that Fastqc was developed for bacterial genomes, mainly, so an unusually shaped distribution in that particular dataset could indicate a contaminated library. But, for example, in an amplicon 16S amplicon dataset it's expected that other modules fail (Duplicate Sequences, Overrepresented Sequences, etc.) not only GC.</p>
  