Pinned Repositories
amazon-omics-tutorials
amazon-genomics-cli
amazon-ebs-autoscale
Don't run out of disk space on your EC2 instance when generating or working with large files. Automatically add EBS volumes to a filesystem mount point in response to disk utilization.
amazon-omics-tools
aws-java-nio-spi-for-s3
A Java NIO.2 service provider for Amazon S3
amazon-ebs-autoscale
Don't run out of disk space on your EC2 instance when generating or working with large files. Automatically add EBS volumes to a filesystem mount point in response to disk utilization.
aws-genomics-workflows
Genomics Workflows on AWS
aws-java-nio-spi-for-s3
fetch-and-run-poc
demonstrate the use of fetch and run strategy with AWS batch from scala
markjschreiber's Repositories
markjschreiber/amazon-ebs-autoscale
Don't run out of disk space on your EC2 instance when generating or working with large files. Automatically add EBS volumes to a filesystem mount point in response to disk utilization.
markjschreiber/aws-genomics-workflows
Genomics Workflows on AWS
markjschreiber/aws-java-nio-spi-for-s3
markjschreiber/fetch-and-run-poc
demonstrate the use of fetch and run strategy with AWS batch from scala
markjschreiber/go-smith-waterman
Demonstration implementation of the Smith Waterman Algorithm in Golang
markjschreiber/amazon-genomics-cli
markjschreiber/amazon-omics-tutorials
markjschreiber/amazon-omics-webapp-integrations
This project contains the webapp sample integrated with Amazon Omics, which allows users such as admin and bioinformaticians to operate Amazon Omics workflow easily and check the run command status with charts and tables.
markjschreiber/arrow
Apache Arrow is a multi-language toolbox for accelerated data interchange and in-memory processing
markjschreiber/atacseq
ATAC-seq peak-calling, QC and differential analysis pipeline
markjschreiber/aws-cdk-guide
User guide for the AWS Cloud Development Kit (CDK).
markjschreiber/barclay
Command line argument parser and online documentation generation utilities for java command line programs.
markjschreiber/cromwell
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
markjschreiber/data-lake-as-code
Data Lake as Code, featuring ChEMBL and OpenTargets
markjschreiber/docsy
A set of Hugo doc templates for launching open source content.
markjschreiber/gatk
Official code repository for GATK versions 4 and up
markjschreiber/gdc-dnaseq-cwl
CWL for GDC DNASeq workflows
markjschreiber/hello-cdk
cdk-tutorial
markjschreiber/htsjdk
A Java API for high-throughput sequencing data (HTS) formats.
markjschreiber/htslib
C library for high-throughput sequencing data formats
markjschreiber/miniwdl
Workflow Description Language developer tools & local runner
markjschreiber/miniwdl-aws
Extends miniwdl to run workflows on AWS Batch & EFS
markjschreiber/miniwdl-omics-run
WDL launcher for Amazon Omics
markjschreiber/picard-1
A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.
markjschreiber/pyarrow-basics
markjschreiber/revcomp
A simple Go program to reverse complement DNA sequences using all available cores on a machine
markjschreiber/samtools
Tools (written in C using htslib) for manipulating next-generation sequencing data
markjschreiber/stjude-rust-wdl
Rust crates for working with Workflow Description Language (WDL) documents.
markjschreiber/tiny-test-data
Super small biological datasets for unit testing
markjschreiber/translate
Simple Demonstration of Amino Acid Translation