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Functional Genomics project joined the wiki. E-BioGrid project for biobanking started. We have proudly joined the. Project on a mission to bring nation-wide IT infrastructure for large scale biobanking. First goal is building a model infrastructure for the Dutch Biobank community, BBMRI-NL, that manage . Quality scores histogram from the BGI. Maybe other graphs/data provided by the BGI. Quality scores with the FastqC toolkit. Quality scores per base. Quality scores per . To gain access to restricted area...

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Functional Genomics project joined the wiki. E-BioGrid project for biobanking started. We have proudly joined the. Project on a mission to bring nation-wide IT infrastructure for large scale biobanking. First goal is building a model infrastructure for the Dutch Biobank community, BBMRI-NL, that manage . Quality scores histogram from the BGI. Maybe other graphs/data provided by the BGI. Quality scores with the FastqC toolkit. Quality scores per base. Quality scores per . To gain access to restricted area...

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bbmri | cropqtl.com Reviews

https://cropqtl.com

Functional Genomics project joined the wiki. E-BioGrid project for biobanking started. We have proudly joined the. Project on a mission to bring nation-wide IT infrastructure for large scale biobanking. First goal is building a model infrastructure for the Dutch Biobank community, BBMRI-NL, that manage . Quality scores histogram from the BGI. Maybe other graphs/data provided by the BGI. Quality scores with the FastqC toolkit. Quality scores per base. Quality scores per . To gain access to restricted area...

INTERNAL PAGES

cropqtl.com

1

CoverageAnalysisPipeline – bbmri

http://www.cropqtl.com/wiki/CoverageAnalysisPipeline

Antoine van Kampen, Barbera van Schaik, Silvia D Olabarriaga, Mark Santcroos, AMC. Calculates coverage per base. Creates a text file which you can use to make a histogram (coverage versus frequency). SortedBamFile, a sorted bam file. ChromSizesTxt, e.g. the chromInfo.txt from the UCSC database. CoverageHistogram: summary of coveragePerBase. An overview about the genome coverage of the sequence experiment. Load this into excel/calc/gnuplot/some-other-program to make a graph. WF Create BWA index on database.

2

SnpCallingPipeline – bbmri

http://www.cropqtl.com/wiki/SnpCallingPipeline

Status: Alpha Authors: Freerk van Dijk, Laurent Francioli, Morris Swertz. This is the documentation of the BBMRI-NL snp calling pipeline based on the. It consists of the following three workflows:. To install and test this pipeline, you could follow this instruction:. To see the pipeline commands, see PipelineCommands. This simplified overview this schema hides intermediate sort and indexing steps and only shows data inputs/outputs first time they occur. Error: Failed to load processor. Put report on FTP...

3

Preferences: General – bbmri

http://www.cropqtl.com/prefs

This page lets you customize your personal settings for this site. These settings are stored on the server and are identified by a session key stored in a browser cookie. That cookie allows your settings to be restored on subsequent visits. This information is used to automatically populate some forms on this site with your contact details. Powered by Trac 1.0.7. Visit the Trac open source project at. Http:/ trac.edgewall.org/.

4

GwasQcPipeline – bbmri

http://www.cropqtl.com/wiki/GwasQcPipeline

Removed all bad samples (taken from Mathieu). P-link - bfile GvNL 250111 - remove GvNL bad samples.txt - make-bed - out GvNL good samples. P-link - bfile GvNL samples - update-ids GvNL family update.txt - make-bed - out GvNL good fam. P-link - bfile GvNL good fam - update-parents GvNL parents update.txt - make-bed - out GvNL good fam par. Manual check for suspicious individuals (not in trios) and remove them. Check and update sex information. P-link - bfile GvNL good fam par susp - check-sex - make-bed.

5

TracIni – bbmri

http://www.cropqtl.com/wiki/TracIni

The Trac Configuration File. The Trac Configuration File. Trac is configured by editing the. File, located in the. Configuration file and its parent directory should be writable by the web server. Trac monitors the timestamp of the file to trigger a complete environment reload and flush its caches when the timestamp changes. Most changes to the configuration will be reflected immediately, though changes to the. File when none was previously present. Inherit] file = /path/to/global/trac.ini. For sharing p...

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bbmri

Functional Genomics project joined the wiki. E-BioGrid project for biobanking started. We have proudly joined the. Project on a mission to bring nation-wide IT infrastructure for large scale biobanking. First goal is building a model infrastructure for the Dutch Biobank community, BBMRI-NL, that manage . Quality scores histogram from the BGI. Maybe other graphs/data provided by the BGI. Quality scores with the FastqC toolkit. Quality scores per base. Quality scores per . To gain access to restricted area...

cropqtl.org

bbmri

Functional Genomics project joined the wiki. E-BioGrid project for biobanking started. We have proudly joined the. Project on a mission to bring nation-wide IT infrastructure for large scale biobanking. First goal is building a model infrastructure for the Dutch Biobank community, BBMRI-NL, that manage . Quality scores histogram from the BGI. Maybe other graphs/data provided by the BGI. Quality scores with the FastqC toolkit. Quality scores per base. Quality scores per . To gain access to restricted area...

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