Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • bair
    replied
    Originally posted by lh3 View Post
    I thought this should never happen, but it happened... This says that at a position there are more than 64 types of indels. For now, you may use "-I" to disable indel calling.
    Thank you heng,

    But I still get outputs, there are SNPs and INDELs in vcf file, can I trust them? Does samtools ignores the problem INDELs and complete the job, or stop running?

    Leave a comment:


  • lh3
    replied
    I thought this should never happen, but it happened... This says that at a position there are more than 64 types of indels. For now, you may use "-I" to disable indel calling.

    Leave a comment:


  • bair
    started a topic samtools mpileup fails

    samtools mpileup fails

    Hello all,

    I'm using asmtools mpileup for snp calling from eight bam files, I get this following error message

    bam2bcf_indel.c:181: bcf_call_gap_prep: Assertion `n_types < 64' failed.
    [bcf_sync] incorrect number of fields (7 != 5). Corrupted file?
    [afs] 0:16195.241 1:1.758 2:87.006 3:1.843 4:16.294 5:0.378 6:3.137 7:0.193 8:4.107 9:0.037 10:0.005 11:0.000 12:3.000
    13:0.000 14:2.008 15:0.118 16:10.874

    Any helps?

    Thanks

Latest Articles

Collapse

  • seqadmin
    Quality Control Essentials for Next-Generation Sequencing Workflows
    by seqadmin




    Like all molecular biology applications, next-generation sequencing (NGS) workflows require diligent quality control (QC) measures to ensure accurate and reproducible results. Proper QC begins at nucleic acid extraction and continues all the way through to data analysis. This article outlines the key QC steps in an NGS workflow, along with the commonly used tools and techniques.

    Nucleic Acid Quality Control
    Preparing for NGS starts with isolating the...
    02-10-2025, 01:58 PM
  • seqadmin
    An Introduction to the Technologies Transforming Precision Medicine
    by seqadmin


    In recent years, precision medicine has become a major focus for researchers and healthcare professionals. This approach offers personalized treatment and wellness plans by utilizing insights from each person's unique biology and lifestyle to deliver more effective care. Its advancement relies on innovative technologies that enable a deeper understanding of individual variability. In a joint documentary with our colleagues at Biocompare, we examined the foundational principles of precision...
    01-27-2025, 07:46 AM

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, 02-07-2025, 09:30 AM
0 responses
68 views
0 likes
Last Post seqadmin  
Started by seqadmin, 02-05-2025, 10:34 AM
0 responses
107 views
0 likes
Last Post seqadmin  
Started by seqadmin, 02-03-2025, 09:07 AM
0 responses
83 views
0 likes
Last Post seqadmin  
Started by seqadmin, 01-31-2025, 08:31 AM
0 responses
47 views
0 likes
Last Post seqadmin  
Working...
X