Pinned Repositories
cn.mops
Fork of Bioconductor git repository for cn.mops. Contains UG-specific changes
delly
DELLY2: Structural variant discovery by integrated paired-end and split-read analysis
ec2-github-runner
On-demand self-hosted AWS EC2 runner for GitHub Actions
FREEC
Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
healthomics-workflows
UltimaGenomics repository for workflows compatible with AWS HealthOmics
hmftools
Various algorithms for analysing genomics data
igv
Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations
STAR
RNA-seq aligner
ugbio-utils
Ultima Genomics bioinfo-utils
VariantCalling
Ultima scripts related to downstream processing of WGS, MRD, methylation analysis
Ultimagen's Repositories
Ultimagen/healthomics-workflows
UltimaGenomics repository for workflows compatible with AWS HealthOmics
Ultimagen/VariantCalling
Ultima scripts related to downstream processing of WGS, MRD, methylation analysis
Ultimagen/FREEC
Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
Ultimagen/ugbio-utils
Ultima Genomics bioinfo-utils
Ultimagen/cn.mops
Fork of Bioconductor git repository for cn.mops. Contains UG-specific changes
Ultimagen/delly
DELLY2: Structural variant discovery by integrated paired-end and split-read analysis
Ultimagen/ec2-github-runner
On-demand self-hosted AWS EC2 runner for GitHub Actions
Ultimagen/gatk
Official code repository for GATK versions 4 and up
Ultimagen/gridss
GRIDSS: the Genomic Rearrangement IDentification Software Suite
Ultimagen/hmftools
Various algorithms for analysing genomics data
Ultimagen/igv
Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations
Ultimagen/parascopy
Copy number estimation and variant calling for duplicated genes using WGS.
Ultimagen/picard
A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.
Ultimagen/STAR
RNA-seq aligner
Ultimagen/HLA-LA
Fast HLA type inference from whole-genome data
Ultimagen/levioSAM
Lift-over alignments from variant-aware references
Ultimagen/leviosam2
Fast and accurate coordinate conversion between assemblies
Ultimagen/SigProfilerAssignment
Assignment of known mutational signatures to individual samples and individual somatic mutations
Ultimagen/test-lfs
test git lfs issues
Ultimagen/UXM_deconv
Ultimagen/wgbs_tools
tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies