Theiagen Genomics

Pinned Repositories

mercury
Mercury prepares and formats metadata for submission to national & international genomic databases.
Language:Python4 4 00
mycosnp-wdl
A WDL wrapper of CDCGov/mycosnp-nf for Terra.bio
Language:WDL2 4 20
public_health_bacterial_genomics
Language:WDL26 5 10914
public_health_bioinformatics
Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health concern.
Language:WDL37 6 32117
public_health_viral_genomics
Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, especially SARS-CoV-2
Language:WDL40 6 10317
tbp-parser
A TBProfiler output parser. Please contact support@theiagen.com or sage.wright@theiagen.com with any questions.
Language:Python4 4 30
terra_utilities
Language:WDL4 6 141
theiagen_docker_builds
Language:Dockerfile2 7 20
theiavalidate
A Python tool to compare the contents of two tab-delimited files.
Language:Python1 1 51
wm_training_202205
Theiagen Genomics repository for workflow management training
Language:Nextflow4 8 03

Theiagen Genomics's Repositories

theiagen/public_health_viral_genomics
Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, especially SARS-CoV-2
Language:WDL40 6 10317
theiagen/public_health_bioinformatics
Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health concern.
Language:WDL37 6 32117
theiagen/public_health_bacterial_genomics
Language:WDL26 5 10914
theiagen/mercury
Mercury prepares and formats metadata for submission to national & international genomic databases.
Language:Python4 4 00
theiagen/tbp-parser
A TBProfiler output parser. Please contact support@theiagen.com or sage.wright@theiagen.com with any questions.
Language:Python4 4 30
theiagen/terra_utilities
Language:WDL4 6 141
theiagen/wm_training_202205
Theiagen Genomics repository for workflow management training
Language:Nextflow4 8 03
theiagen/mycosnp-wdl
A WDL wrapper of CDCGov/mycosnp-nf for Terra.bio
Language:WDL2 4 20
theiagen/theiagen_docker_builds
Language:Dockerfile2 7 20
theiagen/reports
A repository for genomic analysis reports
Language:R1 1 00
theiagen/stylo-wdl
Language:WDL1 4 0
theiagen/theiavalidate
A Python tool to compare the contents of two tab-delimited files.
Language:Python1 1 51
theiagen/utilities
A collection of general utility scripts
Language:Shell1 3 20
theiagen/bacterial-characterization
Language:WDL0 1 00
theiagen/staphb.org
Language:HTML0 1 00
theiagen/Western-WFD-2024
Resource for the Western Region WFD 2024 Training Event
Language:Shell0 3 03
theiagen/wm_training_202207
Language:Nextflow0 3 00
theiagen/AlleleCalling-wdl
Language:WDL
theiagen/centroid
tool to determine optimal refrerence genome given a set of fasta files
Language:Python0 0
theiagen/CLC_Genomics
1 0
theiagen/docker-builds
:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics
Language:Dockerfile1 01
theiagen/genomic_analyses
Language:wdl2 0
theiagen/HMAS-wdl
A WDL wrapper around HMAS-QC-Pipeline2 for Terra.bio
Language:WDL2 0
theiagen/MGen-Theiagen-2023
Language:R4 0
theiagen/NE-PGCOE-Support
Theiagen support for NorthEast Pathogen Genomic Center of Excellence efforts
4 0
theiagen/pb-hifi-viral
WDL and dockerfiles for tools related to PacBio's HiFi Viral SARS-CoV-2 sequence analysis
Language:wdl3 0
theiagen/read_scrub_benchmark
WDL workflow to compare host removal tools
Language:WDL1 0
theiagen/RefNAAP-wdl
WDL wrapper around https://github.com/jiangweiyao/RefNAAP
theiagen/rhea
SARS-CoV-2 consensus assembly quality check and corrections.
Language:Python3 2
theiagen/VADR_models
Language:Batchfile2 1