Skip to main content
Avatar for Prof. Dr. Johannes Köster from gravatar.com

Prof. Dr. Johannes Köster

Username    johanneskoester

40 projects

snakemake-storage-plugin-azure

Last released

A Snakemake storage plugin to read and write from Azure Blob Storage

snakemake-executor-plugin-slurm

Last released

A Snakemake executor plugin for submitting jobs to a SLURM cluster.

snakemake

Last released

Workflow management system to create reproducible and scalable data analyses

snakemake-storage-plugin-fs

Last released

A Snakemake storage plugin that reads and writes from a locally mounted filesystem using rsync

snakemake-interface-storage-plugins

Last released

This package provides a stable interface for interactions between Snakemake and its storage plugins.

snakemake-interface-executor-plugins

Last released

This package provides a stable interface for interactions between Snakemake and its executor plugins.

snakemake-storage-plugin-zenodo

Last released

A Snakemake storage plugin for reading from and writing to zenodo.org

conda-inject

Last released

Helper functions for injecting a conda environment into the current python environment (by modifying sys.path, without actually changing the current python environment).

snakefmt

Last released

The uncompromising Snakemake code formatter

snakemake-executor-plugin-googlebatch

Last released

None

snakemake-storage-plugin-gcs

Last released

A Snakemake storage plugin for Google Cloud Storage

snakedeploy

Last released

Deploy a snakemake pipeline from GitHub

snakemake-storage-plugin-s3

Last released

A Snakemake storage plugin for S3 API storage (AWS S3, MinIO, etc.)

snakemake-executor-plugin-slurm-jobstep

Last released

A Snakemake executor plugin for running srun jobs inside of SLURM jobs (meant for internal use by snakemake-executor-plugin-slurm)

snakemake-interface-common

Last released

Common functions and classes for Snakemake and its plugins

snakemake-storage-plugin-xrootd

Last released

A Snakemake storage plugin for xrootd storage

snakemake-executor-plugin-drmaa

Last released

A snakemake executor plugin for submission of jobs via DRMAA.

snakemake-executor-plugin-cluster-sync

Last released

A Snakemake executor plugin for cluster jobs that are executed synchronously.

snakemake-executor-plugin-tes

Last released

A Snakemake executor plugin for submitting jobs via GA4GH TES.

snakemake-executor-plugin-flux

Last released

A snakemake executor plugin for the Flux scheduler

snakemake-executor-plugin-kubernetes

Last released

A snakemake executor plugin for submission of jobs to Kubernetes

snakemake-executor-plugin-cluster-generic

Last released

snakemake-storage-plugin-irods

Last released

A Snakemake plugin for handling input and output on iRODS

poetry-snakemake-plugin

Last released

A plugin for poetry that adds Snakemake-specific functionality.

snakemake-interface-report-plugins

Last released

The interface for Snakemake report plugins.

ytml

Last released

A YAML based HTML templating engine

snakemake-storage-plugin-ftp

Last released

A Snakemake plugin for handling input and output via FTP

snakemake-executor-plugin-kueue

Last released

snakemake-executor-plugin-azure-batch

Last released

A Snakemake executor plugin for submitting jobs to Microsoft Azure Batch.

snakemake-storage-plugin-webdav

Last released

yte

Last released

A YAML template engine with Python expressions

snakemake-storage-plugin-http

Last released

Snakemake storage plugin for donwloading input files from HTTP(s).

snakemake-storage-plugin-sftp

Last released

A Snakemake storage plugin that handles files on an SFTP server.

snakemake-object

Last released

Language agnostic encoding of Snakemake job information as 'Snakemake objects' into Snakemake script preambles.

snakemake-wrapper-utils

Last released

A collection of utils for Snakemake wrappers.

calfreeslots

Last released

Command line utility to print free calendar slots in the coming days.

vispr

Last released

Interactive HTML5 visualization for CRISPR/Cas9 knockout screen experiments.

peanut

Last released

A massively parallel GPU read mapper using OpenCL.

alpaca-variant-caller

Last released

An algebraic parallel SNV caller using OpenCL

trminer

Last released

mine scientific publications for interesting sentences using patterns

Supported by

AWS AWS Cloud computing and Security Sponsor Datadog Datadog Monitoring Fastly Fastly CDN Google Google Download Analytics Microsoft Microsoft PSF Sponsor Pingdom Pingdom Monitoring Sentry Sentry Error logging StatusPage StatusPage Status page