Pinned Repositories
docker-4dn-hic
Docker for 4DN Hi-C processing pipeline
pairix
1D/2D indexing and querying on bgzipped text file with a pair of genomic coordinates
Rpairix
R binder for pairix - 2D/1D genomic indexing and querying on bgzipped text file
tibanna
Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integration Center) to process data. Tibanna supports CWL/WDL (w/ docker), Snakemake (w/ conda) and custom Docker/shell command.
emsar
EMSAR quantifies transcripts from RNA-seq data (Citation : Lee et al., BMC Bioinformatics 2015, 16:278, http://www.biomedcentral.com/1471-2105/16/278)
NGSCheckMate
Software program for checking sample matching for NGS data
aws-tests
FrenchVerbMarker
A web page that allows the user to mark French verbs according to their tense / mood.
gatk-docker
Docker source file for duplexa/gatk_env:v1 on hub.docker.com
mcool2hic
SooLee's Repositories
SooLee/gatk-docker
Docker source file for duplexa/gatk_env:v1 on hub.docker.com
SooLee/mcool2hic
SooLee/FrenchVerbMarker
A web page that allows the user to mark French verbs according to their tense / mood.
SooLee/aws-tests
SooLee/Benchmark
Benchmark function for pipelines developed and used by 4DN-DCIC in CWL/WDL (dependency of Tibanna)
SooLee/cooler
A cool place to store your Hi-C
SooLee/cwltool
Common Workflow Language reference implementation
SooLee/d3forNozzleR
SooLee/dna-seq-gatk-variant-calling
This Snakemake pipeline implements the GATK best-practices workflow
SooLee/docker-4dn-insulator-score-caller
SooLee/docker-hello
SooLee/docker-hiclib
SooLee/documentation_management
SooLee/gitar.workflow
SooLee/hic2cool
Lightweight converter between hic and cool contact matrices.
SooLee/juicer
A One-Click System for Analyzing Loop-Resolution Hi-C Experiments
SooLee/pairix
A temporary fork from 4dn-dcic/pairix for the PR purpose
SooLee/PieBerg
Pipeline Execution Benchmark Report Generator
SooLee/plotosaurus
SooLee/projects
SooLee/random_stuff
SooLee/serverless-ddd
Serverless DDoS detection
SooLee/snakemake
This is the development home of the workflow management system Snakemake. For general information, see
SooLee/testrepo