Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • normalizing multicov output

    Hi..

    i used multicov to get read counts for specific genomic regions from different samples. Now, i would like to get expression values for those samples by normalizing the data. Can anyone suggest how i can proceed in doing that. i am attaching the sample output below

    HTML Code:
    Chromosome Name	Start	End	Strand	Sample 1	Sample 2	Sample 3	Sample 4	Sample 5	Sample 6
    Gm01	75	93	+	0	0	0	0	0	0
    Gm01	142	433	+	0	0	0	0	0	0
    Gm01	42335623	42335702	+	631	84	42	76	98	112
    Gm01	27758807	27763057	+	557	149	123	306	550	645
    Gm01	50818678	50819255	+	529	264	120	11	102	64
    Gm01	27753335	27757417	+	308	85	72	148	242	264

  • #2
    Why do not you use TopHat?

    Comment


    • #3
      Hi.. i have around million genome coordinates and i am not sure whether tophat can handle that many data points. Also, the genome coordinates vary from 20bp to 10kb regions.

      Comment


      • #4
        It is depends on the computational resources. It is worth to make a try.

        Comment

        Latest Articles

        Collapse

        • seqadmin
          Latest Developments in Precision Medicine
          by seqadmin



          Technological advances have led to drastic improvements in the field of precision medicine, enabling more personalized approaches to treatment. This article explores four leading groups that are overcoming many of the challenges of genomic profiling and precision medicine through their innovative platforms and technologies.

          Somatic Genomics
          “We have such a tremendous amount of genetic diversity that exists within each of us, and not just between us as individuals,”...
          05-24-2024, 01:16 PM
        • seqadmin
          Recent Advances in Sequencing Analysis Tools
          by seqadmin


          The sequencing world is rapidly changing due to declining costs, enhanced accuracies, and the advent of newer, cutting-edge instruments. Equally important to these developments are improvements in sequencing analysis, a process that converts vast amounts of raw data into a comprehensible and meaningful form. This complex task requires expertise and the right analysis tools. In this article, we highlight the progress and innovation in sequencing analysis by reviewing several of the...
          05-06-2024, 07:48 AM

        ad_right_rmr

        Collapse

        News

        Collapse

        Topics Statistics Last Post
        Started by seqadmin, 05-24-2024, 07:15 AM
        0 responses
        198 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 05-23-2024, 10:28 AM
        0 responses
        219 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 05-23-2024, 07:35 AM
        0 responses
        228 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 05-22-2024, 02:06 PM
        0 responses
        12 views
        0 likes
        Last Post seqadmin  
        Working...
        X