Workflows

Fetch today's Johnny Wander Comic (1)

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Use the local java plugins and some filtering operations to fetch the comic strip image from http://www.johnnywander.com/ Based on the FetchDailyDilbert workflow & Fetch today's XKDC comic

Created: 2011-09-12 | Last updated: 2011-09-12

Credits: tpacurtis Franck Tanoh

Attributions: Fetch today's xkcd comic

Seven day weather by zip code (1)

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Get the seven day weather forcast for your zip code. Info display: wind, visibility, temperature, sky conditions and pressure.  Add zip code values to get weather information.

Created: 2011-09-10 | Last updated: 2011-09-14

Credits: Wdsnellg

GT: Database - Master SNP Call Table (1)

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Either load new Master SNP call data into the database (from an Excel file) or export the master SNP data from the database into an Excel file. NOTE: Running this workflow will take a couple of minutes. If loading excel data into database, make sure the file is located in the correct directory: /gne/research/data/lab-shares/gCell/_gCell/Baseline_Profiling_Cells/Genotyping/

Created: 2011-09-10

Credits: Chengc

The NOTCH2 workflow (1)

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Analysis of the exome sequencing data for the following article: Nat Genet. 2011 Mar 6;43(4):306-8. Truncating mutations in the last exon of NOTCH2 cause a rare skeletal disorder with osteoporosis. Isidor B, Lindenbaum P, Pichon O, Bézieau S, Dina C, Jacquemont S, Martin-Coignard D, Thauvin-Robinet C, Le Merrer M, Mandel JL, David A, Faivre L, Cormier-Daire V, Redon R, Le Caignec C. using knime4bio

Created: 2011-09-06 | Last updated: 2011-09-06

Credits: Pierre Lindenbaum

GT: Genotyping Comparison Analysis and Clu... (7)

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Creates a genotyping comparison analysis Excel file and heatmap image given final report and gender call input files. User provides either plate numbers, CLID/BIOIDs, cNames, etc. and can choose to either load the data into the database or not. Note that if user chooses to load data into database, script may take longer (few minutes) to run. Before running, make sure the final report and gender call text files are correctly named and that they are in the correct directory under: /gne/researc...

Created: 2011-09-01 | Last updated: 2011-09-10

Credits: Chengc

GT: Sample Sheet Generation (7)

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Creates a sample sheet from a SAMid exported file. User provides a plate number. Before running, make sure the SAMid exported file is in the correct directory under: /gne/research/data/lab-shares/gCell/_gCell/Baseline_Profiling_Cells/Genotyping/Plate_# Results will be stored under this directory: /gne/research/data/bioinfo/gcell/genotype/prd/Plate_#

Created: 2011-08-31 | Last updated: 2011-09-08

Credits: Chengc

Convert GML to SVG (1)

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This workflow can convert the GML (Geography Markup Language) file to SVG image.

Created: 2011-08-31 | Last updated: 2011-08-31

Credits: Harvey

TIFF to PNG (1)

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This workflow can convert Image format from TIFF to PNG. This workflow is one of the example for GENESI-DEC ontology.

Created: 2011-08-31 | Last updated: 2011-08-31

Credits: Harvey

Image metadata extraction (1)

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This workflow invokes the gdalinfo service and will list various information about a GDAL supported raster dataset of the image ( GeoTIFF, PNG, JPEG and GIF.).

Created: 2011-08-31 | Last updated: 2011-08-31

Credits: Harvey

BATWING (1)

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Batwing reads in multi-locus haplotype data, and model and prior distri- bution specifications, and uses a Markov chain Monte Carlo (MCMC) method based on coalescent theory to generate approximate random samples from the posterior distributions of parameters such as mutation rates, effective population sizes and growth rates, and times of population splitting events. It also generates approximate posterior samples of the entire genealogical tree underly- ing the sample, including the tree hei...

Created: 2011-08-25 | Last updated: 2011-08-25

Credits: Pipeline