pasted
Research Fellow @ Cardiff University Cancer genomics / Genetics of ageing
University of Cardiff
Pinned Repositories
2017-07-14-exeter-swc
action_manager
Small example API
clinical_variant_database
Rails application for storing and parsing clinical exome VCF files. Gene annotations can be retrieved via Biomart integration from Ensembl dataset. Originally developed as part of a Masters in Bioinformatics project @ University of Exeter
gw_meta_analysis_low_muscle_strength
Analysis code and processing stages for Genome-Wide meta-analysis of low grip strength in older people.
mosaic_clusterer
Uses SciKit Learn library's Mean Shift implementation to draw a chart of mosaic variants
simple_bash_pipeline
Historical version of targeted panel sequencing pipeline for Monogenic Diabetes. Originally developed as Masters in Bioinformatics project @ University of Exeter
targeted_sequencing_pipeline
Targeted sequencing pipeline for the Royal Devon & Exeter Molecular Genetics lab.
variant_parser
Selects possible pathogenic variants from an Alamut output
virtual_parser
Virtual panel parser with ruleset for pathogenic variants, for use with Cellbase annotated variants
pasted's Repositories
pasted/clinical_variant_database
Rails application for storing and parsing clinical exome VCF files. Gene annotations can be retrieved via Biomart integration from Ensembl dataset. Originally developed as part of a Masters in Bioinformatics project @ University of Exeter
pasted/gw_meta_analysis_low_muscle_strength
Analysis code and processing stages for Genome-Wide meta-analysis of low grip strength in older people.
pasted/simple_bash_pipeline
Historical version of targeted panel sequencing pipeline for Monogenic Diabetes. Originally developed as Masters in Bioinformatics project @ University of Exeter
pasted/targeted_sequencing_pipeline
Targeted sequencing pipeline for the Royal Devon & Exeter Molecular Genetics lab.
pasted/variant_parser
Selects possible pathogenic variants from an Alamut output
pasted/2017-07-14-exeter-swc
pasted/action_manager
Small example API
pasted/mosaic_clusterer
Uses SciKit Learn library's Mean Shift implementation to draw a chart of mosaic variants
pasted/virtual_parser
Virtual panel parser with ruleset for pathogenic variants, for use with Cellbase annotated variants
pasted/bioruby
bioruby
pasted/bolt_parser
Parser to merge multiple external annotations with BOLT-LMM outputs
pasted/ChAMP
pasted/cooccurrence_matrix
Basic Co-occurrence matrix testbed in Python
pasted/dendroscope_parser
Very old dendroscope parser and annotator
pasted/dynapenia_analysis_plan
pasted/ge_code_test
pasted/gene_coverage_report
Small application to demostrate Biomart, Bio-SamTools (ruby wrapper around Samtools) and Nyaplot graphs
pasted/gtfparse
Parsing tools for GTF (gene transfer format) files
pasted/hgvs
HGVS variant name parsing and generation
pasted/hus-sys
Heamolytic-Uremic Syndrome System
pasted/kaiju
Fast taxonomic classification of metagenomic sequencing reads using a protein reference database
pasted/kerplink
Plink pipeline for GWAS Additive / Recessive models
pasted/MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
pasted/open_target_query
pasted/plink_parser
PLINK 1.9 parser and filter
pasted/spreadsheet
The Ruby Spreadsheet by ywesee GmbH
pasted/starlims_report_generator
Example report generator for StarLIMS
pasted/test_project
pasted/transpose_ped
pasted/trio_generator
Example workflow to generate a trio VCF from parental data