Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • CNVnator : Error message Please Help!

    I typed the following in unix and at step 3 CALCULATING STATISTICS CNVnator output an error message.. I have no clue what does it mean..

    Here is what I typed :

    Code:
    ./cnvnator -genome mm9 -root /home/chr1-bam1.root -chrom chr1 -tree /home/chr1-bam1.bam
    ./cnvnator -genome mm9 -root /home/chr1-bam1.root -chrom chr1 -his 100 -d /01.Reference/mm9
    ./cnvnator -root /home/chr1-bam1.root -chrom chr1 -stat 100
    And Here is the output on the last step CALCULATING STATISTICS :

    Code:
    Warning in [HTML]: DISPLAY not set, setting it to 147.46.154.136:0.0
    Making statistics for chr1 ...
    Average RD per bin (1-22) is 7.69074 +- 4.41474 (before GC correction)
    Warning in [HTML]: Fit data is empty
    Warning in [HTML]: Fit data is empty
    Average RD per bin (X,Y)  is 0 +- 0 (before GC correction)
    Correcting counts by GC-content for 'chr1' ...
    Zero value of GC average.
    Bin 386844 with center 3.86844e+07 is not corrected.
    Zero value of GC average.
    Bin 633561 with center 6.3356e+07 is not corrected.
    Zero value of GC average.
    Bin 645800 with center 6.458e+07 is not corrected.
    Zero value of GC average.
    Bin 803371 with center 8.0337e+07 is not corrected.
    Zero value of GC average.
    Bin 1793725 with center 1.79372e+08 is not corrected.
    Zero value of GC average.
    Bin 1818901 with center 1.8189e+08 is not corrected.
    Making statistics for chr1 after GC correction ...
    Average RD per bin (1-22) is 7.08536 +- 3.84236 (after GC correction)
    Warning in [HTML]: Fit data is empty
    Warning in [HTML]: Fit data is empty
    Average RD per bin (X,Y)  is 0 +- 0 (after GC correction)

Latest Articles

Collapse

  • seqadmin
    Current Approaches to Protein Sequencing
    by seqadmin


    Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...
    04-04-2024, 04:25 PM
  • seqadmin
    Strategies for Sequencing Challenging Samples
    by seqadmin


    Despite advancements in sequencing platforms and related sample preparation technologies, certain sample types continue to present significant challenges that can compromise sequencing results. Pedro Echave, Senior Manager of the Global Business Segment at Revvity, explained that the success of a sequencing experiment ultimately depends on the amount and integrity of the nucleic acid template (RNA or DNA) obtained from a sample. “The better the quality of the nucleic acid isolated...
    03-22-2024, 06:39 AM

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, 04-11-2024, 12:08 PM
0 responses
18 views
0 likes
Last Post seqadmin  
Started by seqadmin, 04-10-2024, 10:19 PM
0 responses
22 views
0 likes
Last Post seqadmin  
Started by seqadmin, 04-10-2024, 09:21 AM
0 responses
17 views
0 likes
Last Post seqadmin  
Started by seqadmin, 04-04-2024, 09:00 AM
0 responses
48 views
0 likes
Last Post seqadmin  
Working...
X