Pinned Repositories
BAGELp
Parallel version of bagel https://sourceforge.net/projects/bagel-for-knockout-screens/
bio-playground
miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.
bpipe
cgp_seq_input_val
Sequence data and manifest validation code.
cgpBpipe
local repo of bpipe that handles LSF array jobs
cnvkit
Copy number variant detection from targeted DNA sequencing
consul
Consul is a distributed, highly available, and data center aware solution to connect and configure applications across dynamic, distributed infrastructure.
copynumber
This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/copynumber.html Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=copynumber.
CRISPRcleanR
Unsupervised correction of gene independent cell responses to CRISPR-cas9
sb43's Repositories
sb43/BAGELp
Parallel version of bagel https://sourceforge.net/projects/bagel-for-knockout-screens/
sb43/cgpBpipe
local repo of bpipe that handles LSF array jobs
sb43/bio-playground
miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.
sb43/cgp_seq_input_val
Sequence data and manifest validation code.
sb43/cnvkit
Copy number variant detection from targeted DNA sequencing
sb43/consul
Consul is a distributed, highly available, and data center aware solution to connect and configure applications across dynamic, distributed infrastructure.
sb43/copynumber
This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/copynumber.html Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=copynumber.
sb43/CRISPRcleanR
Unsupervised correction of gene independent cell responses to CRISPR-cas9
sb43/debrowser
Differential Count Data Analysis Toolbox
sb43/deepSNV
This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/deepSNV.html Contributions: http://github.com/mg14/deepSNV. Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=deepSNV.
sb43/demo-terraform-101
Before and after demo code for the Terraform Introduction training course
sb43/DNAcopyP
Runs parallel version of DNAcopy CBS step
sb43/docker-images
Repository of Docker images created by Continuum Analytics
sb43/encore
Repository to put encore related analysis scripts
sb43/irap
integrated RNA-seq Analysis Pipeline
sb43/methylseq
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
sb43/myBioTools
sb43/ncov2019-artic-nf
A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), with a focus on ncov2019 - adapted to run at the Wellcome Sanger Institute
sb43/nomad
Nomad is a flexible, enterprise-grade cluster scheduler designed to easily integrate into existing workflows. Nomad can run a diverse workload of micro-service, batch, containerized and non-containerized applications. Nomad is easy to operate and scale and integrates seamlessly with Consul and Vault.
sb43/packer
Packer is a tool for creating identical machine images for multiple platforms from a single source configuration.
sb43/PCAP-core
NGS reference implementations and helper code for mapping (originally part of ICGC-TCGA-PanCancer)
sb43/PeakRescue
sb43/peakRescue-1
Method to rescue ambiguous reads in RNA-Seq experiments
sb43/resops_workshop_portal_cluster
sb43/s3cmd-plugin
Dockstore S3cmd file provisioning plugin
sb43/user_guide
The CWL v1.0 user guide
sb43/vagrant
Vagrant is a tool for building and distributing development environments.
sb43/vault
A tool for secrets management, encryption as a service, and privileged access management
sb43/vcf2maf
Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms
sb43/Voronoi_procedure
Quantification of protein surfaces, volumes and atom-atom contacts using a constrained Voronoi procedure.