Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
This topic is closed.
X
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • Trimming or filtering the data from Solid

    Hi ..

    I have got the solid csfatsa file and the data has lot of dots in the sample. So i there any way i can trim or filter the Data in Bowtie,Maq or in another tools that you could suggest.
    Here the sample of the data.

    >1_17_228_F3
    T.1002.312..0..001.0001.2....1..1..022..0....00...0
    >1_17_469_F3
    T.1300.333..0..020.1020.0....0..1..020..3....01...3
    >1_17_578_F3
    T.1002.321..0..021.0230.0....1..2..122..1....11...2
    >1_17_581_F3
    T.1002.322..0..021.0011.0....2..1..021..2....20...1
    >1_112_1012_F3
    T.0300.3330.110021010300000000022130200.31.1.01.0.3
    >1_112_1459_F3
    T.1002.3201.002000003212002001021200223.10.3.30.2.3
    >1_113_39_F3
    T.1000.3330.000001000010100000121000220.10.0.01.0.0
    >1_113_233_F3
    T.1001.3211.012000000110102021021120220.00.0.31.2.0
    >1_113_329_F3
    T.1300.3330.011220010200000000122130200.01.0.01.0.3
    >1_113_835_F3
    T.1300.3330.012220010200002022122230202.01.1.01.2.3

    Thanks
    Anu

  • #2
    Originally posted by anusha View Post
    Hi ..

    I have got the solid csfatsa file and the data has lot of dots in the sample. So i there any way i can trim or filter the Data in Bowtie,Maq or in another tools that you could suggest.
    Here the sample of the data.

    >1_17_228_F3
    T.1002.312..0..001.0001.2....1..1..022..0....00...0
    >1_17_469_F3
    T.1300.333..0..020.1020.0....0..1..020..3....01...3
    >1_17_578_F3
    T.1002.321..0..021.0230.0....1..2..122..1....11...2
    >1_17_581_F3
    T.1002.322..0..021.0011.0....2..1..021..2....20...1
    >1_112_1012_F3
    T.0300.3330.110021010300000000022130200.31.1.01.0.3
    >1_112_1459_F3
    T.1002.3201.002000003212002001021200223.10.3.30.2.3
    >1_113_39_F3
    T.1000.3330.000001000010100000121000220.10.0.01.0.0
    >1_113_233_F3
    T.1001.3211.012000000110102021021120220.00.0.31.2.0
    >1_113_329_F3
    T.1300.3330.011220010200000000122130200.01.0.01.0.3
    >1_113_835_F3
    T.1300.3330.012220010200002022122230202.01.1.01.2.3

    Thanks
    Anu
    Duplicate thread of:
    Discussion of next-gen sequencing related bioinformatics: resources, algorithms, open source efforts, etc

    Comment

    Latest Articles

    Collapse

    • 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
    • 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

    ad_right_rmr

    Collapse

    News

    Collapse

    Topics Statistics Last Post
    Started by seqadmin, Yesterday, 06:37 PM
    0 responses
    12 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, Yesterday, 06:07 PM
    0 responses
    10 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 03-22-2024, 10:03 AM
    0 responses
    52 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 03-21-2024, 07:32 AM
    0 responses
    68 views
    0 likes
    Last Post seqadmin  
    Working...
    X