Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • bowtie paired end

    I had paired end illumina reads of a bacterial genome and i have the reference so i m trying to use bowtie to align the same . so first i made the index of reference and used the following commands

    bowtie2 /Reference/genome -1 /DATA/Read1.fastq -2 /DATA/Read2.fastq -S phix.sam

    But i couldnt give the -n and -l command
    Y is it so ? and how could i give them

  • #2
    Originally posted by nxtgenkid10 View Post
    But i couldnt give the -n and -l command
    Y is it so ? and how could i give them
    Aren't they -N and -L in bowtie2?

    Comment


    • #3
      dpryan is right, the arguments are case sensitive

      Comment


      • #4
        thanks i will try

        Comment

        Latest Articles

        Collapse

        • seqadmin
          Choosing Between NGS and qPCR
          by seqadmin



          Next-generation sequencing (NGS) and quantitative polymerase chain reaction (qPCR) are essential techniques for investigating the genome, transcriptome, and epigenome. In many cases, choosing the appropriate technique is straightforward, but in others, it can be more challenging to determine the most effective option. A simple distinction is that smaller, more focused projects are typically better suited for qPCR, while larger, more complex datasets benefit from NGS. However,...
          10-18-2024, 07:11 AM
        • seqadmin
          Non-Coding RNA Research and Technologies
          by seqadmin




          Non-coding RNAs (ncRNAs) do not code for proteins but play important roles in numerous cellular processes including gene silencing, developmental pathways, and more. There are numerous types including microRNA (miRNA), long ncRNA (lncRNA), circular RNA (circRNA), and more. In this article, we discuss innovative ncRNA research and explore recent technological advancements that improve the study of ncRNAs.

          Nobel Prize for MicroRNA Discovery
          This week,...
          10-07-2024, 08:07 AM

        ad_right_rmr

        Collapse

        News

        Collapse

        Topics Statistics Last Post
        Started by seqadmin, Yesterday, 05:31 AM
        0 responses
        10 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 10-24-2024, 06:58 AM
        0 responses
        20 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 10-23-2024, 08:43 AM
        0 responses
        48 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 10-17-2024, 07:29 AM
        0 responses
        58 views
        0 likes
        Last Post seqadmin  
        Working...
        X