spzfolio.wordpress.com
Visualization – spzfolio
https://spzfolio.wordpress.com/portfolio/vizualization
Sarah Perez is a science researcher, an information visualization specialist, an entrepreneur, and an avid blogger. A picture is worth a thousands words, or so the saying goes. What it really should be is a good. Picture is worth a thousand words. As a scientist, I use visualizations in the form of diagrams and flow charts to illustrate difficult concepts and accompany technical descriptions. A coherent network layout algorithm that places nodes using predefined rules. Hive plots facilitate the visua...
petridishtalk.com
GATK | Petri Dish Talk
https://petridishtalk.com/tag/gatk
February 1, 2013 · 3:07 pm. Variant Discovery, Annotation and Filtering With Samtools and the GATK. While the UnifiedGenotyper included within the Genome Analysis Toolkit ( GATK. Provides an ample method by which to call SNPs and indels, mpileup within Samtools still remains a reliable, quick and straightforward way to get variants. Raw VCF file from Samtools, notice lack of annotations and filters in the 3rd and 7th columns. Bcftools view [raw.variant.bcf] [raw.variant.vcf]. Now that we have a VCF file ...
petridishtalk.com
NGS | Petri Dish Talk
https://petridishtalk.com/tag/ngs
February 1, 2013 · 3:07 pm. Variant Discovery, Annotation and Filtering With Samtools and the GATK. While the UnifiedGenotyper included within the Genome Analysis Toolkit ( GATK. Provides an ample method by which to call SNPs and indels, mpileup within Samtools still remains a reliable, quick and straightforward way to get variants. Raw VCF file from Samtools, notice lack of annotations and filters in the 3rd and 7th columns. Bcftools view [raw.variant.bcf] [raw.variant.vcf]. Now that we have a VCF file ...
petridishtalk.com
Genomics | Petri Dish Talk
https://petridishtalk.com/tag/genomics
January 14, 2014 · 12:47 pm. Not a Big Deal, GRCh38: A Semi-Casual Comparison of the New Human Reference Genome. Over christmas the Genome Reference Consortium gave all of us doing. Life-science a wonderful present, or maybe it was just a lump of coal. GRCh38, the newest human reference genome assembly, was released to cheers and jeers abound. Fig1: Chromosome 20 Assembly With BWA. Fig2: Ts/Tv Ratios between GRCh37 and 38. Fig3: High-level Alignment Map Topology. Between GRCh37.69 and 38. In comb...By fa...
helikarlab.org
Helikar Lab - Publications
http://helikarlab.org/GSoC.html
Google Summer of Code 2015 Idea Page. Welcome to GSoC 2015 in computational systems biology! We have been accepted as an organization, and we are excited to host students this summer to work with us on our projects! Before applying, please review this application template. As well as the GSoC Student Guide. Our group consists of computer scientists, biochemists, biologists, bioinformaticians, as well as mathematicians, creating an unique environment of diverse skills, integrated by a single interest point.
petridishtalk.com
Bioinformatics | Petri Dish Talk
https://petridishtalk.com/tag/bioinformatics
October 2, 2014 · 10:51 am. Retooling Analysis Pipelines from Human to EBOV NGS Data for Rapid Alignment and Strain Identification. Can we use pipelines developed for human NGS analysis and quickly apply them for viral analysis? Being in the news, it seemed like a good time to try. Just as with a human sequencing project, it’s helpful if we have a good reference genome. The NCBI has four different ebola strain reference files located at their ftp:. Accession: NC 002549.1 : 18,959 bp linear cRNA. EBOV mok...
petridishtalk.com
Genomics | Petri Dish Talk
https://petridishtalk.com/category/genomics
October 2, 2014 · 10:51 am. Retooling Analysis Pipelines from Human to EBOV NGS Data for Rapid Alignment and Strain Identification. Can we use pipelines developed for human NGS analysis and quickly apply them for viral analysis? Being in the news, it seemed like a good time to try. Just as with a human sequencing project, it’s helpful if we have a good reference genome. The NCBI has four different ebola strain reference files located at their ftp:. Accession: NC 002549.1 : 18,959 bp linear cRNA. EBOV mok...
petridishtalk.com
Variant Discovery, Annotation & Filtering With Samtools & the GATK | Petri Dish Talk
https://petridishtalk.com/2013/02/01/variant-discovery-annotation-filtering-with-samtools-the-gatk
Exome Sequence Assembly Utilizing Bowtie & Samtools. Mapping KEGG Pathway Interactions with Bioconductor →. February 1, 2013 · 3:07 pm. Variant Discovery, Annotation and Filtering With Samtools and the GATK. While the UnifiedGenotyper included within the Genome Analysis Toolkit ( GATK. Provides an ample method by which to call SNPs and indels, mpileup within Samtools still remains a reliable, quick and straightforward way to get variants. Bcftools view [raw.variant.bcf] [raw.variant.vcf]. Even though we&...
blog.encapsule.org
SCDL | Encapsule Project
http://blog.encapsule.org/tag/scdl
Bookies free bets online bookies sign up bonus from oddstake.com. Online bookies bonus codes. An open exploration of data and program semantics, concept modeling, and recursive software design patterns. Posts Tagged ‘ SCDL. Encapsule Project Next Mocha/Chai Test Author(s). If you look at my GitHub public commit logs you’ll notice that there’s been very little activity here in 2014. This is deceptive; I’ve joined a start-up in Seattle called Azuqua ( http:/ azuqua.com. I was talking with John-David Dalton.
