Pinned Repositories
biojava
:book::microscope::coffee: BioJava is an open-source project dedicated to providing a Java framework for processing biological data.
Dark_and_Camouflaged_genes
Enterprise-Architect-Add-in-Framework
Framework for add-ins on Sparx Systems Enterprise Architect
gatk-1
Official code repository for GATK versions 4 and up
graylog-plugin-hipchat
Alarm callback that is writing to HipChat chatrooms
iem
Configuration files for the Illumina Experiment Manager
PharmCAT
The Pharmacogenomic Clinical Annotation Tool
plantuml-visualizer
:factory: A Chrome / Firefox extension for visualizing PlantUML code.
VarDictJava
VarDict Java port
varsim
VarSim: A high-fidelity simulation validation framework for high-throughput genome sequencing with cancer applications
Limbus Medical Technologies's Repositories
limbus-medtec/Dark_and_Camouflaged_genes
limbus-medtec/iem
Configuration files for the Illumina Experiment Manager
limbus-medtec/plantuml-visualizer
:factory: A Chrome / Firefox extension for visualizing PlantUML code.
limbus-medtec/bcbio-nextgen-1
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
limbus-medtec/gatk-1
Official code repository for GATK versions 4 and up
limbus-medtec/PharmCAT
The Pharmacogenomic Clinical Annotation Tool
limbus-medtec/varsim
VarSim: A high-fidelity simulation validation framework for high-throughput genome sequencing with cancer applications
limbus-medtec/bcbio_docker
Automated Docker builds for bcbio
limbus-medtec/black
The uncompromising Python code formatter
limbus-medtec/C4-PlantUML
C4-PlantUML combines the benefits of PlantUML and the C4 model for providing a simple way of describing and communicate software architectures
limbus-medtec/CheatSheetSeries
The OWASP Cheat Sheet Series was created to provide a concise collection of high value information on specific application security topics.
limbus-medtec/ChromosomeMappings
This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.
limbus-medtec/cloudbiolinux
CloudBioLinux: configure virtual (or real) machines with tools for biological analyses
limbus-medtec/cnvkit-public
Copy number variant detection from targeted DNA sequencing
limbus-medtec/hgvs
Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`
limbus-medtec/HowTo_Calculation_PRS_CanRisk
SOP for PRS calculation using CanRisk
limbus-medtec/jannovar
Java library for annotating VCF files with gene/transcript-based annotations
limbus-medtec/mosdepth
fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
limbus-medtec/multi-package-containers
Testing building mulled containers for multi-requirement tools.
limbus-medtec/nanoseq
Nanopore demultiplexing, QC and alignment pipeline
limbus-medtec/nf-core-modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
limbus-medtec/paraphase
HiFi-based caller for highly homologous genes
limbus-medtec/pgsc_calc
The Polygenic Score Catalog Calculator is a nextflow pipeline for polygenic score calculation
limbus-medtec/pgscatalog_utils
Utilities for working with PGS Catalog API and scoring files
limbus-medtec/primer3
Primer3 is a command line tool to select primers for polymerase chain reaction (PCR).
limbus-medtec/transcript-info
Summary of RefSeq transcript alignment issues with human reference genomes (hg19, hg38)
limbus-medtec/VEP_plugins
Plugins for the Ensembl Variant Effect Predictor (VEP)
limbus-medtec/wf-basecalling
limbus-medtec/wf-human-variation
limbus-medtec/WisecondorX
WisecondorX — An evolved WISECONDOR