Hi! I have annotated some clustered genes in a very fragmented genome assembly based on Illumina reads. I want to study their synteny (impossible in the assembly I have) and I have a lot of nanopore reads as well. I had aligned the nanopore reads to the Illumina annotated-genes using BWA and I have now an alignment file. I now want to get the COMPLETE SEQUENCE of the reads aligning to my reference (so I can make a local assembly of those reads and hopefully get the synteny) and NOT ONLY THE PART OF THE READS THAT ALIGN TO THE REFERENCE. Is it possible to do that? How can I do it? Thanks a lot!
Question: Export reads from an alignment file
2.2 years ago by
elena.syp • 0
elena.syp • 0 wrote:
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