Header Leaderboard Ad


MIRA on 454 data



No announcement yet.
  • Filter
  • Time
  • Show
Clear All
new posts

  • MIRA on 454 data


    anyone used MIRA? Can't find the answer to this in the manual or online...

    I need to filter some 454 paired read data before assembly, using a custom blastdb. That part I have working ok. I've used sff_extract.py to get a fastq and trace_info.xml file for input to MIRA, which I am assembling minus filtering. But, what I need to know is, if I filter the reads, thus loosing the traceinfo.xml file, will MIRA still do the proper clipping of the fastq (remove lower case sequences?)?

    Thanks for any help, I have posted this to the mira list but thought I'd ask here too just in case anyone knew..


  • #2
    As far as I know, Mira does not read trace_info.xml and will clipping the input fastq.


    Latest Articles


    • seqadmin
      A Brief Overview and Common Challenges in Single-cell Sequencing Analysis
      by seqadmin

      ​​​​​​The introduction of single-cell sequencing has advanced the ability to study cell-to-cell heterogeneity. Its use has improved our understanding of somatic mutations1, cell lineages2, cellular diversity and regulation3, and development in multicellular organisms4. Single-cell sequencing encompasses hundreds of techniques with different approaches to studying the genomes, transcriptomes, epigenomes, and other omics of individual cells. The analysis of single-cell sequencing data i...

      01-24-2023, 01:19 PM
    • seqadmin
      Introduction to Single-Cell Sequencing
      by seqadmin
      Single-cell sequencing is a technique used to investigate the genome, transcriptome, epigenome, and other omics of individual cells using high-throughput sequencing. This technology has provided many scientific breakthroughs and continues to be applied across many fields, including microbiology, oncology, immunology, neurobiology, precision medicine, and stem cell research.

      The advancement of single-cell sequencing began in 2009 when Tang et al. investigated the single-cell transcriptomes
      01-09-2023, 03:10 PM