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I have been using AssemblyImprover following VelvetOptimizer for 36 bacterial genomes. For the majority of the genomes, I generated the expected output files:
contigs.fa.scaffolded.filtered
contigs.fa.scaffolded.gapfilled.filtered
scaffolds.scaffolded.gapfilled.length_filtered.fa
scaffolds.scaffolded.gapfilled.length_filtered.sorted.fa
But for a handful, I get the following files:
contigs.scaffolded.fa
contigs.scaffolded.gapfilled.fa
scaffolds.scaffolded.gapfilled.length_filtered.fa
scaffolds.scaffolded.gapfilled.length_filtered.sorted.fa
What is the difference? Are these unexpected files usable? I can not find any documentation about this discrepancy anywhere, so anything you can tell me would be helpful.
The text was updated successfully, but these errors were encountered:
I have been using AssemblyImprover following VelvetOptimizer for 36 bacterial genomes. For the majority of the genomes, I generated the expected output files:
contigs.fa.scaffolded.filtered
contigs.fa.scaffolded.gapfilled.filtered
scaffolds.scaffolded.gapfilled.length_filtered.fa
scaffolds.scaffolded.gapfilled.length_filtered.sorted.fa
But for a handful, I get the following files:
contigs.scaffolded.fa
contigs.scaffolded.gapfilled.fa
scaffolds.scaffolded.gapfilled.length_filtered.fa
scaffolds.scaffolded.gapfilled.length_filtered.sorted.fa
What is the difference? Are these unexpected files usable? I can not find any documentation about this discrepancy anywhere, so anything you can tell me would be helpful.
The text was updated successfully, but these errors were encountered: