Hi everyone,
Really excited to be a part of this community. I am one of the team members of BioBox Analytics. We're a group of former...
15 results in 0.0021 seconds.
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Mutational Analysis: Identifying SNVs on demand
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bwa mem - low properly paired percentage
After aligning paired-end 100bp reads to a reference genome, I am getting very low properly paired percentage:
369208441 0 total (QC-passed... -
Program to view multiple alignment files at once
I have aligned reads to a database containing 10 reference sequences using BWA MEM, and now have .sam and .bam files.
Is there a program... -
Alignment of reads obtained from HaloPlex HS target-enriched sequencing
Hello everyone,
I have reads that are obtained from HaloPlex HS target-enriched sequencing (Illumina MiSeq platform).
As per my understanding,...Last edited by vandana8; 06-20-2017, 10:54 PM. -
BWA not outputting sequences
Hi, I am having an issue with BWA genome alignment where sequence information is not being stored (i.e. sequence output in bam file is a * ). Can anyone... -
Scalpel indel caller running slowly on TCGA WGS BAM files
Hi members,
I am trying to use the Scalpel indel caller (http://scalpel.sourceforge.net/) to find indels in WGS files from TCGA. But am... -
CNV calling with BWA mem
Hi,
In my center we are interested in calling CNVs from targeted resequencing using Illumina's MiSeq and I am facing the following issue:... -
Aligning to different regions with BWA
Hi,
I was wondering if it is possible in BWA (or perhaps a similar program) to use a reference sequence composed of several different regions.... -
Generate a SAM file containing aligned reads GATK Error
Hello All,
I am a new bee here and entirely new to bioinformatics, I am working on the tutorial of GATK. I using its command to map and mark duplicates... -
Hardware requirements for various tools
Hi All
New to sequencing.
I am planning on running BWA, GATK and possibly VarScan.
Does anyone know what are the hardware... -
BWA alignment question - bad mate pairs?
Hi there,
I've just aligned 5 whole canine genomes to the CanFam3 reference using BWA for subsequent processing using the GATK pipeline.... -
Introduction and request for BWA information
Hello,
I am a new student of Bioinformatics from Seattle and so far it's a fascinating field. I am starting to work on a school project... -
BWA - XM tag Question
I have installed BWA. And build index of hg19 using command:
bwa index -a bwtsw hg19.fa
Now I find alignment using command:...Last edited by Arupsss; 06-28-2012, 06:51 AM. -
BWA - Error in Run Time
I have installed BWA. And build index of hg19 using command:
Now I am trying to find alignment...Code:bwa index -a bwtsw hg19.fa
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bwa outputs bam with less reads than in input fastq
I downloaded a publicly available bam file and ran samtools flagstat on it. The output is here:
482805326 + 0 in total (QC-passed reads +...
