Dear all
I am new to dindel and I tried to call indels from a pool of bam files. I followed their manual, which ran smoothly until step 3 when...
34 results in 0.0023 seconds.
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dindel how to merge library files in pooled setting
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dindel stage 4 for pooled samples
How to set the --numBamFiles and --numSamples parameters for the fourth step in a dindel analysis of pooled samples.
I have 27 individuals... -
Understanding glf format (Dindel)
Hi, I used the Dindel (Illumina data), but I had some problems.
In the last step I got a VCF file empty. I am wondering if the filtration criteria... -
Dindel Realining Reads
Hello,
I am using to call indels from cancer data. So far I have been successfull with Stage 1, 2 & 3. When I try to use the mergeOutpuDiploid... -
Error when running Dindel realignment stage
Hi all,
I'm running Dindel for calling small indels from whole-exome sequencing data.
I have finished pervious samples successfully.... -
DINDEL --varFile not specified
Hello,
I'm aware this issue (or similar) has been alerady posted but I don't get DINDEL to work for the 'Stage 3' (version 1.0, page 4... -
dindel, exomes and chromosome 10
Hi all,
I run dindel as part of workflow which I do for dna seq, which large percent is exome samples. I've noticed something quite odd... -
Pipeline to simulate short reads and call indels
Hi
http://biotechies.blogspot.com/2011/...ct-indels.html is a kind of howto for doing the following pipeline:... -
dindel output
Hello All,
I run Dindel and now I am trying to understand the output. I did not find an example describing each column in the output. ... -
Dindel empty variant result file
I'm running dindel's first stage analysis set to: getCIGARindels
The run looks good (number of reads read is reported some indels are found, Reports... -
can I automate running dindel?
Hello,
I am writing a script for automatically running dindel commands. But it never works.
For example, whenever I use:... -
dindel question
Hi all,
In the dindel manual there is a paragraph that reads:
Targeted resequencing: With targeted resequencing experiments, such... -
Dindel Segmentation fault
Hello,
I am using Dindel for callind Indels on Novo aligned bam files. I was successful in generating the variant files. But while generating... -
dindel: stage 4 crach
Hi All,
I've successfully went through first three stages of dindel variant calling, but getting the following error message when using...Last edited by michalkovac; 02-21-2011, 07:25 AM. -
Dindel - overrepresentation of 1 bp indels
Hi all,
I performed whole exome sequencing with 2x 100bp paired end sequencing on the Illumina Genome Analyzer II. I aligned the reads...
