Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • coverageBed -split giving incorrect output?

    In the command below, coverageBed seems to be ignoring the -split argument.

    $ coverageBed -split -a a2.bed -b b2.bed > out.txt

    (The inputs and the output for the command above are shown below in addition to being attached.)

    Please note that b2.bed defines two blocks, each of width 1960, and that a2.bed defines a single block of length 50 that is between those two blocks and does not intersect them. Yet, in out.txt the 13th field has a 1 in it, indicating that there was an overlap. Also, the 15th field in out.txt is the distance from the beginning of the first block of b2.bed to the end of the last block of b2.bed. I think it should be 1960+1960.

    What am I doing wrong? Any help appreciated.
    I'm running v2.12.0 of coverageBed.
    Thanks. -Ben

    $ cat a2.bed
    chrX 5561936 5561986 56_1638_1187_F3 50 - 5561936 5561986 255,0,01 50 0

    $ cat b2.bed
    chrX 4074963 30247441 eg:668963:chrX 0 + 4074963 4076923 0 2 1960,1960, 0,26170518,

    $ cat out.txt
    chrX 4074963 30247441 eg:668963:chrX 0 + 4074963 4076923 0 2 1960,1960, 0,26170518, 1 50 26172478 0.0000019
    Attached Files

Latest Articles

Collapse

  • seqadmin
    Techniques and Challenges in Conservation Genomics
    by seqadmin



    The field of conservation genomics centers on applying genomics technologies in support of conservation efforts and the preservation of biodiversity. This article features interviews with two researchers who showcase their innovative work and highlight the current state and future of conservation genomics.

    Avian Conservation
    Matthew DeSaix, a recent doctoral graduate from Kristen Ruegg’s lab at The University of Colorado, shared that most of his research...
    03-08-2024, 10:41 AM
  • seqadmin
    The Impact of AI in Genomic Medicine
    by seqadmin



    Artificial intelligence (AI) has evolved from a futuristic vision to a mainstream technology, highlighted by the introduction of tools like OpenAI's ChatGPT and Google's Gemini. In recent years, AI has become increasingly integrated into the field of genomics. This integration has enabled new scientific discoveries while simultaneously raising important ethical questions1. Interviews with two researchers at the center of this intersection provide insightful perspectives into...
    02-26-2024, 02:07 PM

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, 03-14-2024, 06:13 AM
0 responses
32 views
0 likes
Last Post seqadmin  
Started by seqadmin, 03-08-2024, 08:03 AM
0 responses
71 views
0 likes
Last Post seqadmin  
Started by seqadmin, 03-07-2024, 08:13 AM
0 responses
80 views
0 likes
Last Post seqadmin  
Started by seqadmin, 03-06-2024, 09:51 AM
0 responses
68 views
0 likes
Last Post seqadmin  
Working...
X