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There are 12 companies in the field of Bioinformatics on spotfolio that produce or deliver products, that utilize or research technologies or that are otherwise engaged in topics such as GATK, Genomics, Sequencing, Variant-Calling, BWA, Genome, Exome, Reference-Genome .
Early-stage companies (9)
Established companies (1)
The majority of these companies is located in the following countries.
United States (7)
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Eukaryotic genome annotation - About Us A head-to-head evaluation of GATK vs Google DeepVariant Exome SNP calling accuracy for Illumina vs BGISEQ-500 ...
pipeline for SNP variant calling accuracy, GATK haplotypeCaller against Google DeepVariant for exome sequencing. GATK HaplotypeCaller takes an assembly based ...
are present in NA24149 within the regions defined by the exome bed file. GATK and DeepVariant pipelines were run in-house on both datasets and parameter ...
that DeepVariant outperform GATK haplotypeCaller though the gap between the two SNP calling pipelines is marginal. - GATK HaplotypeCaller called more false ...
by GATK and DeepVariant on Illumina HiSeq sequencing platform. Comparison of True Positive (TP) and False Positive (FP) SNP variant calls by GATK and ...
accuracy comparison across Illumina and BGISeq-500 sequencing data using GATK and DeepVariant. Dataset SNP caller True positives False Positives False
WASAI Technology WASAI Technology, Inc
Distributor - More Needs for Generating a High Performance Acceleration of GATK Best Practice TAIPEI, TAIWAN, Jun. 30, 2020 – Next Generation Sequencing ...
of the genome sequencing, Broad Institute of MIT and Harvard, provides the GATK Best Practice, an open source-based analysis workflow for researchers to ...
fact that the GATK Best Practice is the most widely adopted genomic variant detection workflows, the algorithms implemented within GATK have some shortcomings ...
analysis. Therefore, a high performance acceleration solution to match the GATK Best Practice is extremely important to deal with the genome data. Focusing ...
the GATK Best Practice 1. Based on the GATK Best Practice: Including BWA-MEM algorithm for alignment and variant calling analytical toolkit-GATK, it also ...
us at firstname.lastname@example.org! #NextGenerationSequencing #LightningSolution #GATK #BWA About WASAI Technology Inc. WASAI Technology's mission is to deliver
volumes of genomics data. It integrates with the Genome Analysis Toolkit (GATK) on the server with FPGA accelerator together, provides 11x speed up of whole ...
Performance Whole Genome dataset NA12878 30X ● BWA-MEM ● Sort & Markdup ● GATK HaplotypeCaller Visualize your genomics analysis - Simple and Easy to Use ...
Rackmount server ● Accelerate GATK Best Practice Pipeline ● WGS NA12878 at 30x coverage in 3 hours ● The accuracy is consistent with GATK Best Practice ● Applied ...
& Consistency The acceleration is based on native algorithm BWA-MEA and GATK pipeline which are the most popular tools for secondary analysis. Cost-efficient
Mission Bio Mission Bio, Inc.
Tapestri Pipeline. - [panel-id].amplicons - [panel-id].bed - [panel-id].gatk - systemic-variants.blacklist The Designer folder in the .zip file contains ...
folder. The .amplicons file has the same content as amplion.bed, and the .gatk and .bed files have the same data as insert.bed. But Tapestri Pipeline requires ...
[panel-id]-design-summary.csv - File: [panel-id]-insert.bed - File: [panel-id].gatk - File: [panel-id]-missed.bed - File: [panel-id]-submitted.bed See more articles
cells.vcf.gz This compressed annotated .vcf file conforms to the standard GATK format. It contains all the variants for all the barcodes called as cells
Pipeline for Variant Detection Software-only solution, over 20× faster than GATK 3.3 with identical results 1 5 5 Jessica A. Weber , Rafael Aldana , Brendan ...
current gold standard in variant calling is the Genome Analysis Toolkit (GATK)1 Best Practice Workflow pipeline using HaplotypeCaller, which is regarded ...
processing speed on the same hardware with results that are identical to the GATK pipeline, with differences within the numerical noise. Six exome samples ...
pipelines. The eight samples were analyzed individually using SAMtools 1.2/GATK 3.3 and Sentieon DNA 201505.02 on a 24 core, 2.4 GHz AMD Opteron 6234, 96GB ...
14.04.2 at the University of New Mexico. Sentieon DNA is >20× faster than GATK 3.3 The runtime for the two pipelines using HaplotypeCaller variant calling ...
from 108-2126 minutes for GATK 3.3 and 3-47 minutes for Sentieon DNA, while genome runtime was 2188 and 3978 minutes for GATK 3.3 and 66 and 198 minutes
Introduction¶ This documents describes how to execute the Broad institute GATK Best Practices described in using the Sentieon Genomics software. The document ...
functionality consistent with existing GATK pipeline tools. Table 1 Broad/GATK matching tools¶ Sentieon tool GATK pipeline tool Version correspondence for ...
IndelRealigner GATK 3.7/GATK3.8 QualCal BaseRecalibrator GATK 3.7/GATK3.8/GATK 4.0/GATK 4.1 ReadWriter PrintReads GATK 3.7/GATK3.8/GATK 4.0/GATK 4.1 QualCal ...
AnalyzeCovariates GATK 3.7/GATK3.8/GATK 4.0/GATK 4.1 Genotyper UnifiedGenotyper GATK 3.7/GATK3.8 Haplotyper HaplotypeCaller GATK 3.7/GATK3.8/GATK 4.0/GATK 4.1 GVCFtyper ...
GenotypeGVCFs GATK 3.7/GATK3.8/GATK 4.0/GATK 4.1 VarCal VariantRecalibrator GATK 3.7/GATK3.8/GATK 4.0/GATK 4.1 ApplyVarCal ApplyRecalibration/ApplyVQSR GATK 3.7/GATK3 ...
7/GATK3.8/GATK 4.0/GATK 4.1 TNsnv MuTect MuTect 1.1.5 TNhaplotyper MuTect2 GATK 3.7/GATK3.8 TNhaplotyper2 GATK4 Mutect2 GATK 18.104.22.168 Mutect2 RNASplitReadsAtJunction
Maverix Biomics Maverix Biomics, Inc.
Annotation SNPs and indels are identified using one of four variant callers (GATK, FreeBayes, Platypus, and VarScan) and a VCF file is produced. SnpEff is
Annotation SNPs and indels are identified using one of four variant callers (GATK and FreeBayes, Platypus, and VarScan) and a VCF file is produced. SnpEff
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