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PacBio software vcf and consensus fasta do not agree
I'm using PacBio's "variantCaller" tool (v6) to call variants on some older RSII subread data I aligned with blasr. The reference is 14845... -
PacBio software vcf and consensus fasta do not agree
I'm using your "variantCaller" tool (v6) to call variants on some older RSII subread data I aligned with blasr. The reference is 14845 bp.... -
Introducing Skymap: a single data matrix for each omic layer for each species
Skymap is a standalone database that aims to offer:
1. a single data matrix for each omic layer for each species that spans >200k sequencing...Last edited by brianytsui; 08-12-2018, 04:15 PM. -
Introducing Skymap: a single data matrix for each omic layer for each species
Skymap is a standalone database that aims to offer:
1. a single data matrix for each omic layer for each species that spans >200k sequencing... -
Training in Data Integration, Analysis and Visualization @ NIH, USA, Dec 13-16, 2016
Training in Data Integration, Analysis and Visualization
Dec 13-16, 2016
Where?
National Institutes... -
Training in Data Integration, Analysis and Visualization @ NIH, USA
Training in Data Integration, Analysis and Visualization
Dec 13-16, 2016
Where?
National Institutes... -
Training in Data Integration, Analysis and Visualization @ NIH, USA, Dec 13-16, 2016
Training in Data Integration, Analysis and Visualization
Dec 13-16, 2016
Where?
National Institutes... -
Confused about RG ID LB even after reading all posts/GATK best practices
I am getting conflicting information on how to assign RG ID, LB, PU, SM for an exome analysis I am working with.
Can someone just clarify...Last edited by Studentlost; 03-05-2016, 08:06 PM. -
Left-normalisation of variants using R
I'm writing a mitochondrial haplotyping script in R, and one of the things I needed to do was left-normalisation of INDELs. Because of the way the variants... -
Variant found in priming site
I sequenced barcoded PCR amplicons on Ion Torrent PGM, and a subset of samples were also Sanger sequenced to confirm variable sites.
I... -
Calling SNPs from RNAseq bam files
Hello SeqAnswers community,
I am trying to use Samtools to call SNPs from my RNAseq data. I already have bam files, so I tried to use the... -
Variant Calling outside Torrent Suite and TVC
Hello,
After trying to build Torrent Suite 4 for weeks on a RedHat Linux without success (I got compiled programs but not working with my...Last edited by gmarco; 03-25-2014, 04:17 AM. -
perplexing bowtie2 repeat alignments
I am seeing something perplexing, can you help? I am trying to call variants in plasmids. To do this I am using bowtie2, freebayes and an assortment...Last edited by Mark; 07-12-2013, 07:40 AM. -
Samtools mpileup calling independantly on multiple files
Hi all,
this may seem a rather odd question, I am ultimately looking to get a VCF file containing calls for all my samples in a batch of... -
HugeSeq Pipeline
Does anyone have experience using the HugeSeq pipeline (link below)?
http://hugeseq.snyderlab.org/?d1319850
The tools in the...
