Pulse Bioinformatics, University of Saskatchewan's repositories
nd_genotypes
Drupal/Tripal: Tripal interface for Chado Natural Diversity Genotypic data.
rawphenotypes
A Tripal module for storing raw phenotypic data. Specifically meant to help researchers contribute raw data, visualize summaries and download for further analysis.
tripal_bibtex
A BibTEX importer for Tripal Publications.
genotypes_loader
A Drush-based loader for VCF files that follows the genotype storage rules outlined by ND genotypes.
haplotype-map-embed
Provide a page for each haplotype-map in Tripal site.
kp_searches
Provides custom search functionality for KnowPulse.
tripal_germplasm_importer
Tripal 3 importer for saving germplasm into chado stock tables.
tripal_hq_imports
Extends Tripal HQ to support TripalImporters.
vcf_filter
Form interface so users can custom filter existing VCF files and export in a variety of formats.
analyzedphenotypes
Tripal/Drupal support for analyzed phenotypic data including data loaders, exporters, trait pages and summaries on germplasm pages.
chado_custom_search
Provides custom search functionality for those who don't wish to use Drupal Views.
helium_exporter
Provides a data export of germplasm and phenotypic data for visualization using Helium.
tripal_citation
Tripal Fields specific to providing automated citations for data based on properties + publications
tripal_qtl
Provides additional fields and data import which provide support for quantitative trait loci. Additionally, it integrates with Tripal Map through shared vocabulary terms and data storage models.
BrAPI-Graphical-Filtering
Tool for filtering BrAPI ObservationUnits and Germplasm by Observation values
germ_summary
Provides a matrix describing the number of germplasm (chado.stocks) per organism combination.
germcollection
Provides Fields and views to support germplasm collections in Tripal
haplotype-map
A library for visualizing haplotype data in the form a colored matrix.
howto-use-R-for-dataanalysis
How do I tidy, download, and graph my data?
kp_fields
A collection of fields used by KnowPulse.
kp_frontpage
Customize the frontpage of KnowPulse.
lims_rawseq
Drupal/Tripal: Provides a simple node type for recording Sequencing Run details.
our-modules
University of Saskatchewan, Pulse Bioinformatics Tripal modules.
scripts
Scripts and one-liners used by our group. Saved here so they are not forgotten...
synvisio
SynVisio is an interactive multiscale visualization tool that lets you explore the results of McScanX a popular synteny and collinearity detection toolkit.
uofs-pulse-binfo.github.io
Provides the code for the Pulse Bioinformatics, University of Saskatchewan organization website.
uofspb_germplasm
Drupal/Tripal: Provide support for germplasm.